import logging
import os
import gzip
import pandas
import easydict
import starapi.analysis
import starapi.conf
starapi.analysis.logger.propagate = False
starapi.conf.configure('data')
query_df = pandas.read_table('data/queries.tsv')
query_df.head()
slim_id | slim_name | case_query | control_query | |
---|---|---|---|---|
0 | DOID:0050156 | idiopathic pulmonary fibrosis | IPF == 'IPF' | IPF_control == 'IPF_control' |
1 | DOID:0050741 | alcohol dependence | alcoholism == 'alcoholism' | alcoholism_control == 'alcoholism_control' |
2 | DOID:0050742 | nicotine dependence | Smoker == 'Smoker' | Smoker_control == 'Smoker_control' |
3 | DOID:1024 | leprosy | borderline_leprosy == 'borderline_leprosy' or ... | leprosy_control == 'leprosy_control' |
4 | DOID:10283 | prostate cancer | PC == 'PC' | PC_control == 'PC_control' or PC_tissue_contro... |
errors = list()
for i, row in query_df.iterrows():
print i, row.slim_id, row.slim_name
name = row.slim_id.replace(':', '_')
params = easydict.EasyDict(
analysis_name = name,
case_query = row.case_query,
control_query = row.control_query,
modifier_query = '',
min_samples = 3,
)
directory = os.path.join('data', 'doslim', params.analysis_name)
if not os.path.isdir(directory):
os.mkdir(directory)
logfile = logging.FileHandler(os.path.join(directory, 'log.txt'))
logfile.setLevel(logging.DEBUG)
starapi.analysis.logger.addHandler(logfile)
try:
sample_df, fold_df, balanced_perm_df, perm_df = starapi.analysis.perform_analysis(params)
for df in fold_df, balanced_perm_df:
if df is not None:
df.reset_index(inplace=True)
except Exception as e:
sample_df, fold_df, balanced_perm_df, perm_df = None, None, None, None
errors.append({'slim_id': row.slim_id, 'name': name, 'error': e})
print(e)
starapi.analysis.logger.removeHandler(logfile)
# write files
files = [
(sample_df, 'samples.tsv', open),
(fold_df, 'fold_change.tsv.gz', gzip.open),
(balanced_perm_df, 'balanced_permutation.tsv.gz', gzip.open),
]
for df, filename, opener in files:
if df is None:
continue
path = os.path.join(directory, filename)
with opener(path, 'wt') as write_file:
df.to_csv(write_file, index=False, sep='\t', float_format='%.5g')
Started DOID_0050156 analysis /home/dhimmels/anaconda3/envs/stargeo/lib/python2.7/site-packages/pandas/core/indexing.py:115: SettingWithCopyWarning: A value is trying to be set on a copy of a slice from a DataFrame See the the caveats in the documentation: http://pandas.pydata.org/pandas-docs/stable/indexing.html#indexing-view-versus-copy self._setitem_with_indexer(indexer, value) 915.86 ms in get_analysis_df("IPF == 'IPF'", "IPF_control == 'IPF_c..., '') 920.37 ms in Loading dataframe for DOID_0050156 Matching sources: 12 Stats: 12 sources, 12 series, 8 platforms, 679 samples Loading data and calculating fold change for DOID_0050156 Loading data for GSE10667, id = 179 733.09 ms in get_probes(10) 18.13 s in load_gse( series_id platform_id..., 179, False) /home/dhimmels/Documents/serg/rephetio/construct/star_api/starapi/analysis.py:168: SettingWithCopyWarning: A value is trying to be set on a copy of a slice from a DataFrame. Try using .loc[row_indexer,col_indexer] = value instead See the the caveats in the documentation: http://pandas.pydata.org/pandas-docs/stable/indexing.html#indexing-view-versus-copy samples['subset'] = "NA" 3.45 s in get_gene_fold_change(<Gse GSE10667>, False, 0, None) Loading data for GSE17978, id = 2072 621.34 ms in get_probes(593) 19.05 s in load_gse( series_id platform_id..., 2072, False) 3.02 s in get_gene_fold_change(<Gse GSE17978>, False, 0, None) Loading data for GSE2052, id = 2719 279.66 ms in get_probes(687) 3.88 s in load_gse( series_id platform_id..., 2719, False) 1.04 s in get_gene_fold_change(<Gse GSE2052>, False, 0, None) Loading data for GSE24206, id = 3666 626.52 ms in get_probes(4) 17.90 s in load_gse( series_id platform_id..., 3666, False) 3.33 s in get_gene_fold_change(<Gse GSE24206>, False, 0, None) Loading data for GSE28042, id = 4602 524.96 ms in get_probes(53) 34.31 s in load_gse( series_id platform_id..., 4602, False) 5.57 s in get_gene_fold_change(<Gse GSE28042>, False, 0, None) Loading data for GSE28221, id = 4650 506.39 ms in get_probes(53) 33.68 s in load_gse( series_id platform_id..., 4650, False) 5.80 s in get_gene_fold_change(<Gse GSE28221>, False, 0, None) Loading data for GSE31934, id = 5581 111.77 ms in get_probes(1004) 490.42 ms in load_gse( series_id platform_id..., 5581, False) 453.72 ms in get_gene_fold_change(<Gse GSE31934>, False, 0, None) Loading data for GSE33566, id = 5969 544.43 ms in get_probes(53) 23.24 s in load_gse( series_id platform_id..., 5969, False) 4.69 s in get_gene_fold_change(<Gse GSE33566>, False, 0, None) Loading data for GSE35145, id = 6333 526.27 ms in get_probes(674) 7.53 s in load_gse( series_id platform_id..., 6333, False) 1.94 s in get_gene_fold_change(<Gse GSE35145>, False, 0, None) Loading data for GSE38958, id = 7205 539.93 ms in get_probes(280) 26.03 s in load_gse( series_id platform_id..., 7205, False) 6.33 s in get_gene_fold_change(<Gse GSE38958>, False, 0, None) Loading data for GSE45686, id = 8724 526.17 ms in get_probes(674) 23.63 s in load_gse( series_id platform_id..., 8724, False) 3.25 s in get_gene_fold_change(<Gse GSE45686>, False, 0, None) Loading data for GSE53845, id = 12401 696.20 ms in get_probes(53) 19.18 s in load_gse( series_id platform_id..., 12401, False) 3.15 s in get_gene_fold_change(<Gse GSE53845>, False, 0, None) 273.18 s in Load/fold for DOID_0050156 Meta-Analyzing DOID_0050156 450.82 s in meta analysis of real data for DOID_0050156 981.75 ms in meta analysis of permutations for DOID_0050156 204.09 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 452.40 s in Meta analysis for DOID_0050156 DONE DOID_0050156 analysis 726.74 s in perform_analysis({'analysis_name': 'DOI...)
0 DOID:0050156 idiopathic pulmonary fibrosis 1
Started DOID_0050741 analysis 935.05 ms in get_analysis_df("alcoholism == 'alcoho..., "alcoholism_control ==..., '') 939.27 ms in Loading dataframe for DOID_0050741 Matching sources: 8 Stats: 8 sources, 8 series, 8 platforms, 435 samples Loading data and calculating fold change for DOID_0050741 Loading data for GSE10356, id = 95 39.47 ms in get_probes(36) 22.10 s in load_gse( series_id platform_id..., 95, False) 205.21 ms in get_gene_fold_change(<Gse GSE10356>, False, 0, None) Loading data for GSE20568, id = 2733 42.28 ms in get_probes(689) 2.34 s in load_gse( series_id platform_id..., 2733, False) 324.24 ms in get_gene_fold_change(<Gse GSE20568>, False, 0, None) Loading data for GSE29555, id = 5002 492.71 ms in get_probes(389) 21.88 s in load_gse( series_id platform_id..., 5002, False) 5.61 s in get_gene_fold_change(<Gse GSE29555>, False, 0, None) Loading data for GSE44456, id = 8480 411.77 ms in get_probes(283) 12.21 s in load_gse( series_id platform_id..., 8480, False) 2.61 s in get_gene_fold_change(<Gse GSE44456>, False, 0, None) Loading data for GSE49376, id = 9395 386.02 ms in get_probes(789) 11.28 s in load_gse( series_id platform_id..., 9395, False) 2.24 s in get_gene_fold_change(<Gse GSE49376>, False, 0, None) Loading data for GSE53808, id = 10083 687.26 ms in get_probes(841) 16.98 s in load_gse( series_id platform_id..., 10083, False) 4.00 s in get_gene_fold_change(<Gse GSE53808>, False, 0, None) Loading data for GSE9058, id = 11639 42.36 ms in get_probes(1630) 3.00 s in load_gse( series_id platform_id..., 11639, False) 366.50 ms in get_gene_fold_change(<Gse GSE9058>, False, 0, None) Loading data for GSE52553, id = 12329 628.57 ms in get_probes(4) 46.63 s in load_gse( series_id platform_id..., 12329, False) 6.93 s in get_gene_fold_change(<Gse GSE52553>, False, 0, None) 161.31 s in Load/fold for DOID_0050741 Meta-Analyzing DOID_0050741 388.82 s in meta analysis of real data for DOID_0050741 487.60 ms in meta analysis of permutations for DOID_0050741 135.90 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 389.91 s in Meta analysis for DOID_0050741 DONE DOID_0050741 analysis 552.36 s in perform_analysis({'analysis_name': 'DOI...)
DOID:0050741 alcohol dependence 2
Started DOID_0050742 analysis 1.08 s in get_analysis_df("Smoker == 'Smoker'", "Smoker_control == 'Sm..., '') 1.08 s in Loading dataframe for DOID_0050742 Matching sources: 22 Excluded 3 sources as single-class Stats: 19 sources, 17 series, 6 platforms, 1423 samples Loading data and calculating fold change for DOID_0050742 Loading data for GSE10006, id = 4 631.65 ms in get_probes(4) 45.85 s in load_gse( series_id platform_id..., 4, False) 7.15 s in get_gene_fold_change(<Gse GSE10006>, False, 0, None) Loading data for GSE11784, id = 450 649.63 ms in get_probes(4) 85.42 s in load_gse( series_id platform_id..., 450, False) 11.72 s in get_gene_fold_change(<Gse GSE11784>, False, 0, None) Loading data for GSE11906, id = 487 632.96 ms in get_probes(4) 114.28 s in load_gse( series_id platform_id..., 487, False) 15.96 s in get_gene_fold_change(<Gse GSE11906>, False, 0, None) Loading data for GSE19407, id = 2430 667.29 ms in get_probes(4) 64.76 s in load_gse( series_id platform_id..., 2430, False) 3.05 s in get_gene_fold_change(<Gse GSE19407>, False, 0, None) Loading data for GSE20257, id = 2650 479.26 ms in get_probes(4) 68.46 s in load_gse( series_id platform_id..., 2650, False) 10.23 s in get_gene_fold_change(<Gse GSE20257>, False, 0, None) Loading data for GSE20568, id = 2733 42.03 ms in get_probes(689) 2.26 s in load_gse( series_id platform_id..., 2733, False) 402.85 ms in get_gene_fold_change(<Gse GSE20568>, False, 0, None) Loading data for GSE27272, id = 4446 444.34 ms in get_probes(331) 53.00 s in load_gse( series_id platform_id..., 4446, False) 6.65 s in get_gene_fold_change(<Gse GSE27272>, False, 0, None) Loading data for GSE30063, id = 5140 629.17 ms in get_probes(4) 50.30 s in load_gse( series_id platform_id..., 5140, False) skipping GPL570: sample ids mismatch 145.15 ms in get_gene_fold_change(<Gse GSE30063>, False, 0, None) Loading data for GSE3320, id = 5880 390.59 ms in get_probes(2) 3.95 s in load_gse( series_id platform_id..., 5880, False) 1.46 s in get_gene_fold_change(<Gse GSE3320>, False, 0, None) Loading data for GSE4498, id = 8585 623.13 ms in get_probes(4) 16.09 s in load_gse( series_id platform_id..., 8585, False) 3.22 s in get_gene_fold_change(<Gse GSE4498>, False, 0, None) Loading data for GSE5056, id = 9571 220.70 ms in get_probes(22) 3.29 s in load_gse( series_id platform_id..., 9571, False) 915.41 ms in get_gene_fold_change(<Gse GSE5056>, False, 0, None) Loading data for GSE5057, id = 9574 392.47 ms in get_probes(2) 3.95 s in load_gse( series_id platform_id..., 9574, False) 1.39 s in get_gene_fold_change(<Gse GSE5057>, False, 0, None) Loading data for GSE5058, id = 9577 333.80 ms in get_probes(4) 21.69 s in load_gse( series_id platform_id..., 9577, False) 3.05 s in get_gene_fold_change(<Gse GSE5058>, False, 0, None) Loading data for GSE5059, id = 9580 448.12 ms in get_probes(4) 4.71 s in load_gse( series_id platform_id..., 9580, False) 1.18 s in get_gene_fold_change(<Gse GSE5059>, False, 0, None) Loading data for GSE5060, id = 9582 627.81 ms in get_probes(4) 218.55 ms in get_probes(22) 412.39 ms in get_probes(2) 39.71 s in load_gse( series_id platform_id..., 9582, False) 6.91 s in get_gene_fold_change(<Gse GSE5060>, False, 0, None) Loading data for GSE6264, id = 10896 411.24 ms in get_probes(78) 9.70 s in load_gse( series_id platform_id..., 10896, False) 1.75 s in get_gene_fold_change(<Gse GSE6264>, False, 0, None) Loading data for GSE8545, id = 11509 654.10 ms in get_probes(4) 32.19 s in load_gse( series_id platform_id..., 11509, False) 5.14 s in get_gene_fold_change(<Gse GSE8545>, False, 0, None) 706.43 s in Load/fold for DOID_0050742 Meta-Analyzing DOID_0050742 425.75 s in meta analysis of real data for DOID_0050742 1.65 s in meta analysis of permutations for DOID_0050742 139.95 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 428.01 s in Meta analysis for DOID_0050742 DONE DOID_0050742 analysis 1135.78 s in perform_analysis({'analysis_name': 'DOI...)
DOID:0050742 nicotine dependence 3
Started DOID_1024 analysis 1.30 s in get_analysis_df("borderline_leprosy ==..., "leprosy_control == 'l..., '') 1.30 s in Loading dataframe for DOID_1024 Matching sources: 1 Excluded 1 source by min samples FAIL Can't perform meta-analysis on no data 1.45 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1024 leprosy 4
Started DOID_10283 analysis 970.33 ms in get_analysis_df("PC == 'PC'", "PC_control == 'PC_con..., '') 974.80 ms in Loading dataframe for DOID_10283 Matching sources: 16 Excluded 13 sources as single-class Stats: 3 sources, 3 series, 2 platforms, 464 samples Loading data and calculating fold change for DOID_10283 Loading data for GSE11682, id = 437 683.58 ms in get_probes(10) 21.18 s in load_gse( series_id platform_id..., 437, False) 3.14 s in get_gene_fold_change(<Gse GSE11682>, False, 0, None) Loading data for GSE30994, id = 5362 691.05 ms in get_probes(10) 7.43 s in load_gse( series_id platform_id..., 5362, False) 1.85 s in get_gene_fold_change(<Gse GSE30994>, False, 0, None) Loading data for GSE62872, id = 13217 40.58 ms in get_probes(1787) 73.23 s in load_gse( series_id platform_id..., 13217, False) 384.08 ms in get_gene_fold_change(<Gse GSE62872>, False, 0, None) 108.32 s in Load/fold for DOID_10283 Meta-Analyzing DOID_10283 330.96 s in meta analysis of real data for DOID_10283 222.74 ms in meta analysis of permutations for DOID_10283 139.95 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 331.84 s in Meta analysis for DOID_10283 DONE DOID_10283 analysis 441.33 s in perform_analysis({'analysis_name': 'DOI...)
DOID:10283 prostate cancer 5
Started DOID_10534 analysis 688.48 ms in get_analysis_df("stomach_cancer_tissue..., "stomach_cancer_tissue..., '') 692.69 ms in Loading dataframe for DOID_10534 Matching sources: 2 Excluded 1 source as single-class FAIL Can't perform meta-analysis on single source 830.04 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:10534 stomach cancer 6
Started DOID_10608 analysis 602.89 ms in get_analysis_df("celiac == 'celiac'", "celiac_control == 'ce..., '') 607.10 ms in Loading dataframe for DOID_10608 Matching sources: 1 FAIL Can't perform meta-analysis on single source 741.56 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:10608 celiac disease 7
Started DOID_10652 analysis 698.75 ms in get_analysis_df("AD == 'AD'", "AD_Control == 'AD_Con..., '') 703.39 ms in Loading dataframe for DOID_10652 Matching sources: 4 Excluded 2 sources as single-class Stats: 2 sources, 2 series, 2 platforms, 512 samples Loading data and calculating fold change for DOID_10652 Loading data for GSE33000, id = 5836 603.23 ms in get_probes(297) 282.01 s in load_gse( series_id platform_id..., 5836, False) 17.46 s in get_gene_fold_change(<Gse GSE33000>, False, 0, None) Loading data for GSE6613, id = 11004 394.15 ms in get_probes(2) 18.90 s in load_gse( series_id platform_id..., 11004, False) 2.58 s in get_gene_fold_change(<Gse GSE6613>, False, 0, None) 321.61 s in Load/fold for DOID_10652 Meta-Analyzing DOID_10652 204.31 s in meta analysis of real data for DOID_10652 158.82 ms in meta analysis of permutations for DOID_10652 132.08 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 205.10 s in Meta analysis for DOID_10652 DONE DOID_10652 analysis 527.58 s in perform_analysis({'analysis_name': 'DOI...)
DOID:10652 Alzheimer's disease 8
Started DOID_10763 analysis 773.56 ms in get_analysis_df("PHT == 'PHT' or hyper..., "PHT_Control == 'PHT_C..., '') 777.83 ms in Loading dataframe for DOID_10763 Matching sources: 8 Excluded 1 source as single-class Stats: 7 sources, 7 series, 6 platforms, 309 samples Loading data and calculating fold change for DOID_10763 Loading data for GSE10767, id = 202 640.46 ms in get_probes(4) 7.93 s in load_gse( series_id platform_id..., 202, False) 2.33 s in get_gene_fold_change(<Gse GSE10767>, False, 0, None) Loading data for GSE15197, id = 1359 501.87 ms in get_probes(53) 14.78 s in load_gse( series_id platform_id..., 1359, False) 2.62 s in get_gene_fold_change(<Gse GSE15197>, False, 0, None) Loading data for GSE19617, id = 2473 677.07 ms in get_probes(53) 12.51 s in load_gse( series_id platform_id..., 2473, False) 2.48 s in get_gene_fold_change(<Gse GSE19617>, False, 0, None) Loading data for GSE24988, id = 3871 420.34 ms in get_probes(283) 32.75 s in load_gse( series_id platform_id..., 3871, False) 3.82 s in get_gene_fold_change(<Gse GSE24988>, False, 0, None) Loading data for GSE33463, id = 5944 487.04 ms in get_probes(389) 60.72 s in load_gse( series_id platform_id..., 5944, False) 5.80 s in get_gene_fold_change(<Gse GSE33463>, False, 0, None) Loading data for GSE48149, id = 9192 410.54 ms in get_probes(1292) 10.33 s in load_gse( series_id platform_id..., 9192, False) 1.77 s in get_gene_fold_change(<Gse GSE48149>, False, 0, None) Loading data for GSE703, id = 11135 213.02 ms in get_probes(22) 1.86 s in load_gse( series_id platform_id..., 11135, False) 710.23 ms in get_gene_fold_change(<Gse GSE703>, False, 0, None) 163.00 s in Load/fold for DOID_10763 Meta-Analyzing DOID_10763 409.11 s in meta analysis of real data for DOID_10763 551.80 ms in meta analysis of permutations for DOID_10763 143.77 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 410.25 s in Meta analysis for DOID_10763 DONE DOID_10763 analysis 574.23 s in perform_analysis({'analysis_name': 'DOI...)
DOID:10763 hypertension 9
Started DOID_10871 analysis 848.31 ms in get_analysis_df("AMD == 'AMD'", "AMD_control == 'AMD_c..., '') 852.83 ms in Loading dataframe for DOID_10871 Matching sources: 1 FAIL Can't perform meta-analysis on single source 992.27 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:10871 age related macular degeneration 10
Started DOID_1094 analysis 527.38 ms in get_analysis_df("ADHD == 'ADHD'", "ADHD_control == 'ADHD..., '') 531.70 ms in Loading dataframe for DOID_1094 Matching sources: 1 Excluded 1 source by min samples FAIL Can't perform meta-analysis on no data 670.63 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:1094 attention deficit hyperactivity disorder 11
Started DOID_11054 analysis 187.60 ms in get_analysis_df("bladder_cancer == 'bl..., "bladder_cancer_contro..., '') 192.53 ms in Loading dataframe for DOID_11054 Matching sources: 0 FAIL Can't perform meta-analysis on no data 257.00 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:11054 urinary bladder cancer 12
Started DOID_11612 analysis 659.71 ms in get_analysis_df("PCOS == 'PCOS'", "PCOS_control == 'PCOS..., '') 663.94 ms in Loading dataframe for DOID_11612 Matching sources: 11 Stats: 11 sources, 10 series, 5 platforms, 215 samples Loading data and calculating fold change for DOID_11612 Loading data for GSE10946, id = 254 627.60 ms in get_probes(4) 18.10 s in load_gse( series_id platform_id..., 254, False) 2.58 s in get_gene_fold_change(<Gse GSE10946>, False, 0, None) Loading data for GSE1615, id = 1613 394.39 ms in get_probes(2) 328.87 ms in get_probes(50) 8.39 s in load_gse( series_id platform_id..., 1613, False) 2.51 s in get_gene_fold_change(<Gse GSE1615>, False, 0, None) Loading data for GSE34526, id = 6193 633.63 ms in get_probes(4) 10.67 s in load_gse( series_id platform_id..., 6193, False) 2.53 s in get_gene_fold_change(<Gse GSE34526>, False, 0, None) Loading data for GSE43264, id = 8243 352.05 ms in get_probes(1160) 4.34 s in load_gse( series_id platform_id..., 8243, False) 1.42 s in get_gene_fold_change(<Gse GSE43264>, False, 0, None) Loading data for GSE43322, id = 8252 350.34 ms in get_probes(1160) 7.19 s in load_gse( series_id platform_id..., 8252, False) 1.71 s in get_gene_fold_change(<Gse GSE43322>, False, 0, None) Loading data for GSE48301, id = 9220 404.42 ms in get_probes(283) 10.89 s in load_gse( series_id platform_id..., 9220, False) 2.17 s in get_gene_fold_change(<Gse GSE48301>, False, 0, None) Loading data for GSE5090, id = 9638 386.80 ms in get_probes(2) 4.76 s in load_gse( series_id platform_id..., 9638, False) 1.54 s in get_gene_fold_change(<Gse GSE5090>, False, 0, None) Loading data for GSE5850, id = 10693 620.85 ms in get_probes(4) 9.47 s in load_gse( series_id platform_id..., 10693, False) 2.61 s in get_gene_fold_change(<Gse GSE5850>, False, 0, None) Loading data for GSE6798, id = 11053 622.97 ms in get_probes(4) 18.75 s in load_gse( series_id platform_id..., 11053, False) 3.63 s in get_gene_fold_change(<Gse GSE6798>, False, 0, None) Loading data for GSE8157, id = 11431 630.11 ms in get_probes(4) 31.07 s in load_gse( series_id platform_id..., 11431, False) 2.61 s in get_gene_fold_change(<Gse GSE8157>, False, 0, None) 150.63 s in Load/fold for DOID_11612 Meta-Analyzing DOID_11612 424.83 s in meta analysis of real data for DOID_11612 927.93 ms in meta analysis of permutations for DOID_11612 133.99 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 426.36 s in Meta analysis for DOID_11612 DONE DOID_11612 analysis 577.86 s in perform_analysis({'analysis_name': 'DOI...)
DOID:11612 polycystic ovary syndrome 13
Started DOID_11714 analysis 1.16 s in get_analysis_df("GDM == 'GDM'", "GDM_control == 'GDM_c..., '') 1.17 s in Loading dataframe for DOID_11714 Matching sources: 4 Excluded 2 sources by min samples Stats: 2 sources, 2 series, 2 platforms, 12 samples Loading data and calculating fold change for DOID_11714 Loading data for GSE49524, id = 9415 383.56 ms in get_probes(482) 3.80 s in load_gse( series_id platform_id..., 9415, False) 1.29 s in get_gene_fold_change(<Gse GSE49524>, False, 0, None) Loading data for GSE65737, id = 13510 39.08 ms in get_probes(1802) 7.65 s in load_gse( series_id platform_id..., 13510, False) 259.91 ms in get_gene_fold_change(<Gse GSE65737>, False, 0, None) 13.24 s in Load/fold for DOID_11714 Meta-Analyzing DOID_11714 FAIL Got empty meta-analysis 24.41 s in meta analysis of real data for DOID_11714 24.41 s in Meta analysis for DOID_11714 38.99 s in perform_analysis({'analysis_name': 'DOI...)
DOID:11714 gestational diabetes 14
Started DOID_11949 analysis 683.39 ms in get_analysis_df("CJD == 'CJD'", "CJD_control == 'CJD_c..., '') 688.06 ms in Loading dataframe for DOID_11949 Matching sources: 1 Excluded 1 source by min samples FAIL Can't perform meta-analysis on no data 829.53 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:11949 Creutzfeldt-Jakob disease 15
Started DOID_12306 analysis 528.20 ms in get_analysis_df("vitiligo == 'vitiligo'", "vitiligo_control == '..., '') 532.34 ms in Loading dataframe for DOID_12306 Matching sources: 1 FAIL Can't perform meta-analysis on single source 665.96 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:12306 vitiligo 16
Started DOID_12365 analysis 772.40 ms in get_analysis_df("malaria == 'malaria'", "malaria_control == 'm..., '') 776.55 ms in Loading dataframe for DOID_12365 Matching sources: 8 Excluded 1 source as single-class Excluded 1 source by min samples Stats: 6 sources, 6 series, 5 platforms, 295 samples Loading data and calculating fold change for DOID_12365 Loading data for GSE15221, id = 1372 472.48 ms in get_probes(17) 18.50 s in load_gse( series_id platform_id..., 1372, False) 2.54 s in get_gene_fold_change(<Gse GSE15221>, False, 0, None) Loading data for GSE18323, id = 2164 504.85 ms in get_probes(9) 59.50 s in load_gse( series_id platform_id..., 2164, False) 2.99 s in get_gene_fold_change(<Gse GSE18323>, False, 0, None) Loading data for GSE24849, id = 3840 665.61 ms in get_probes(4) 20.08 s in load_gse( series_id platform_id..., 3840, False) 3.15 s in get_gene_fold_change(<Gse GSE24849>, False, 0, None) Loading data for GSE34404, id = 6155 622.84 ms in get_probes(674) 81.11 s in load_gse( series_id platform_id..., 6155, False) 9.39 s in get_gene_fold_change(<Gse GSE34404>, False, 0, None) Loading data for GSE5418, id = 10145 387.07 ms in get_probes(2) 15.67 s in load_gse( series_id platform_id..., 10145, False) 2.23 s in get_gene_fold_change(<Gse GSE5418>, False, 0, None) Loading data for GSE7586, id = 11293 630.14 ms in get_probes(4) 12.58 s in load_gse( series_id platform_id..., 11293, False) 2.65 s in get_gene_fold_change(<Gse GSE7586>, False, 0, None) 232.71 s in Load/fold for DOID_12365 Meta-Analyzing DOID_12365 427.04 s in meta analysis of real data for DOID_12365 541.35 ms in meta analysis of permutations for DOID_12365 127.08 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 428.18 s in Meta analysis for DOID_12365 DONE DOID_12365 analysis 661.86 s in perform_analysis({'analysis_name': 'DOI...)
DOID:12365 malaria 17
Started DOID_12849 analysis 972.66 ms in get_analysis_df("autism == 'autism'", "autism_control == 'au..., '') 976.91 ms in Loading dataframe for DOID_12849 Matching sources: 14 Excluded 1 source as single-class Excluded 1 source by min samples Stats: 12 sources, 11 series, 7 platforms, 1302 samples Loading data and calculating fold change for DOID_12849 Loading data for GSE15402, id = 1425 574.85 ms in get_probes(497) 43.99 s in load_gse( series_id platform_id..., 1425, False) 4.44 s in get_gene_fold_change(<Gse GSE15402>, False, 0, None) Loading data for GSE15451, id = 1434 611.95 ms in get_probes(497) 14.35 s in load_gse( series_id platform_id..., 1434, False) 2.13 s in get_gene_fold_change(<Gse GSE15451>, False, 0, None) Loading data for GSE18123, id = 2111 621.44 ms in get_probes(4) 409.51 ms in get_probes(283) 116.39 s in load_gse( series_id platform_id..., 2111, False) 10.72 s in get_gene_fold_change(<Gse GSE18123>, False, 0, None) Loading data for GSE25507, id = 4004 697.71 ms in get_probes(4) 90.69 s in load_gse( series_id platform_id..., 4004, False) 10.06 s in get_gene_fold_change(<Gse GSE25507>, False, 0, None) Loading data for GSE26415, id = 4204 500.18 ms in get_probes(53) 17.25 s in load_gse( series_id platform_id..., 4204, False) 4.76 s in get_gene_fold_change(<Gse GSE26415>, False, 0, None) Loading data for GSE28521, id = 4729 424.22 ms in get_probes(331) 10.15 s in load_gse( series_id platform_id..., 4729, False) 3.25 s in get_gene_fold_change(<Gse GSE28521>, False, 0, None) Loading data for GSE37772, id = 6963 433.29 ms in get_probes(331) 111.35 s in load_gse( series_id platform_id..., 6963, False) 15.74 s in get_gene_fold_change(<Gse GSE37772>, False, 0, None) Loading data for GSE38322, id = 7080 528.52 ms in get_probes(674) 21.71 s in load_gse( series_id platform_id..., 7080, False) 3.01 s in get_gene_fold_change(<Gse GSE38322>, False, 0, None) Loading data for GSE43076, id = 8190 513.79 ms in get_probes(53) 891.11 ms in load_gse( series_id platform_id..., 8190, False) /home/dhimmels/anaconda3/envs/stargeo/lib/python2.7/site-packages/numpy/lib/nanfunctions.py:227: RuntimeWarning: All-NaN axis encountered warnings.warn("All-NaN axis encountered", RuntimeWarning) 1.93 s in get_gene_fold_change(<Gse GSE43076>, False, 0, None) Loading data for GSE42133, id = 12084
DOID:12849 autistic disorder Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE42133/GSE42133_series_matrix.txt.gz ... Cache to
541.31 ms in get_probes(674) 86.31 s in load_gse( series_id platform_id..., 12084, False) 7.93 s in get_gene_fold_change(<Gse GSE42133>, False, 0, None) Loading data for GSE63524, id = 13274
data/geo_mirror/DATA/SeriesMatrix/GSE42133/GSE42133_series_matrix.txt.gz Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE63524/GSE63524_series_matrix.txt.gz ... Cache to
776.78 ms in get_probes(10) 13.49 s in load_gse( series_id platform_id..., 13274, False) 2.07 s in get_gene_fold_change(<Gse GSE63524>, False, 0, None) 596.60 s in Load/fold for DOID_12849 Meta-Analyzing DOID_12849 465.19 s in meta analysis of real data for DOID_12849 1.06 s in meta analysis of permutations for DOID_12849 146.15 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 466.87 s in Meta analysis for DOID_12849 DONE DOID_12849 analysis 1064.68 s in perform_analysis({'analysis_name': 'DOI...)
data/geo_mirror/DATA/SeriesMatrix/GSE63524/GSE63524_series_matrix.txt.gz 18
Started DOID_13223 analysis 876.80 ms in get_analysis_df("uterine_fibroid == 'u..., "uterine_fibroid_contr..., '') 880.97 ms in Loading dataframe for DOID_13223 Matching sources: 7 Excluded 1 source as single-class Stats: 6 sources, 6 series, 5 platforms, 124 samples Loading data and calculating fold change for DOID_13223 Loading data for GSE2724, id = 4435 396.20 ms in get_probes(2) 5.14 s in load_gse( series_id platform_id..., 4435, False) 1.69 s in get_gene_fold_change(<Gse GSE2724>, False, 0, None) Loading data for GSE28945, id = 4848 113.37 ms in get_probes(929) 689.04 ms in load_gse( series_id platform_id..., 4848, False) 365.17 ms in get_gene_fold_change(<Gse GSE28945>, False, 0, None) Loading data for GSE41386, id = 7773 640.53 ms in get_probes(4) 9.32 s in load_gse( series_id platform_id..., 7773, False) 2.45 s in get_gene_fold_change(<Gse GSE41386>, False, 0, None) Loading data for GSE593, id = 10753 416.41 ms in get_probes(2) 3.94 s in load_gse( series_id platform_id..., 10753, False) 1.47 s in get_gene_fold_change(<Gse GSE593>, False, 0, None) Loading data for GSE9511, id = 11757 219.17 ms in get_probes(22) 2.37 s in load_gse( series_id platform_id..., 11757, False) 693.31 ms in get_gene_fold_change(<Gse GSE9511>, False, 0, None) Loading data for GSE64763, id = 13408 392.57 ms in get_probes(9) 14.72 s in load_gse( series_id platform_id..., 13408, False) 2.56 s in get_gene_fold_change(<Gse GSE64763>, False, 0, None) 47.45 s in Load/fold for DOID_13223 Meta-Analyzing DOID_13223 271.18 s in meta analysis of real data for DOID_13223 368.96 ms in meta analysis of permutations for DOID_13223 135.90 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 272.14 s in Meta analysis for DOID_13223 DONE DOID_13223 analysis 320.66 s in perform_analysis({'analysis_name': 'DOI...)
DOID:13223 uterine fibroid 19
Started DOID_1324 analysis 1.58 s in get_analysis_df("NSCLC == 'NSCLC' or P..., "lung_cancer_control =..., '') 1.59 s in Loading dataframe for DOID_1324 Matching sources: 51 Excluded 49 sources as single-class Stats: 2 sources, 2 series, 2 platforms, 800 samples Loading data and calculating fold change for DOID_1324 Loading data for GSE19804, id = 2533 647.04 ms in get_probes(4) 64.35 s in load_gse( series_id platform_id..., 2533, False) 4.89 s in get_gene_fold_change(<Gse GSE19804>, False, 0, None) Loading data for GSE66499, id = 13592 662.28 ms in get_probes(283) 245.86 s in load_gse( series_id platform_id..., 13592, False) 21.82 s in get_gene_fold_change(<Gse GSE66499>, False, 0, None) 337.69 s in Load/fold for DOID_1324 Meta-Analyzing DOID_1324 310.46 s in meta analysis of real data for DOID_1324 225.98 ms in meta analysis of permutations for DOID_1324 149.97 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 311.37 s in Meta analysis for DOID_1324 DONE DOID_1324 analysis 650.85 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1324 lung cancer 20
Started DOID_13241 analysis 692.33 ms in get_analysis_df("Behcet == 'Behcet'", "Behcet_control == 'Be..., '') 696.77 ms in Loading dataframe for DOID_13241 Matching sources: 1 FAIL Can't perform meta-analysis on single source 836.11 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:13241 Behcet's disease 21
Started DOID_13378 analysis 534.16 ms in get_analysis_df("Kawasaki == 'Kawasaki'", "Kawasaki_control == '..., '') 538.32 ms in Loading dataframe for DOID_13378 Matching sources: 1 FAIL Can't perform meta-analysis on single source 670.39 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:13378 Kawasaki disease 22
Started DOID_14221 analysis 664.23 ms in get_analysis_df("MetS == 'MetS'", "MetS_Control == 'MetS..., '') 668.46 ms in Loading dataframe for DOID_14221 Matching sources: 4 Excluded 4 sources as single-class FAIL Can't perform meta-analysis on no data 748.79 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:14221 metabolic syndrome X 23
Started DOID_14227 analysis 520.80 ms in get_analysis_df("azoospermia == 'azoos..., "azoospermia_control =..., '') 524.97 ms in Loading dataframe for DOID_14227 Matching sources: 2 Stats: 2 sources, 2 series, 1 platforms, 51 samples Loading data and calculating fold change for DOID_14227 Loading data for GSE45885, id = 8763 418.51 ms in get_probes(283) 12.55 s in load_gse( series_id platform_id..., 8763, False) 2.25 s in get_gene_fold_change(<Gse GSE45885>, False, 0, None) Loading data for GSE45887, id = 8764 416.45 ms in get_probes(283) 9.17 s in load_gse( series_id platform_id..., 8764, False) 1.89 s in get_gene_fold_change(<Gse GSE45887>, False, 0, None) 26.43 s in Load/fold for DOID_14227 Meta-Analyzing DOID_14227 345.29 s in meta analysis of real data for DOID_14227 164.47 ms in meta analysis of permutations for DOID_14227 137.09 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 345.97 s in Meta analysis for DOID_14227 DONE DOID_14227 analysis 373.09 s in perform_analysis({'analysis_name': 'DOI...)
DOID:14227 azoospermia 24
Started DOID_14330 analysis 821.05 ms in get_analysis_df("PD == 'PD'", "PD_control == 'PD_con..., '') 825.38 ms in Loading dataframe for DOID_14330 Matching sources: 30 Excluded 2 sources as single-class Excluded 1 source by min samples Stats: 27 sources, 26 series, 12 platforms, 946 samples Loading data and calculating fold change for DOID_14330 Loading data for GSE18838, id = 2292 550.63 ms in get_probes(280) 7.34 s in load_gse( series_id platform_id..., 2292, False) 2.70 s in get_gene_fold_change(<Gse GSE18838>, False, 0, None) Loading data for GSE19587, id = 2467 393.92 ms in get_probes(9) 6.29 s in load_gse( series_id platform_id..., 2467, False) 759.14 ms in get_gene_fold_change(<Gse GSE19587>, False, 0, None) Loading data for GSE20141, id = 2616 696.28 ms in get_probes(4) 13.39 s in load_gse( series_id platform_id..., 2616, False) 3.04 s in get_gene_fold_change(<Gse GSE20141>, False, 0, None) Loading data for GSE20146, id = 2619 685.16 ms in get_probes(4) 12.73 s in load_gse( series_id platform_id..., 2619, False) 3.13 s in get_gene_fold_change(<Gse GSE20146>, False, 0, None) Loading data for GSE20153, id = 2621 626.99 ms in get_probes(4) 12.07 s in load_gse( series_id platform_id..., 2621, False) 2.83 s in get_gene_fold_change(<Gse GSE20153>, False, 0, None) Loading data for GSE20163, id = 2625 392.26 ms in get_probes(2) 6.31 s in load_gse( series_id platform_id..., 2625, False) 1.64 s in get_gene_fold_change(<Gse GSE20163>, False, 0, None) Loading data for GSE20164, id = 2626 391.40 ms in get_probes(2) 4.65 s in load_gse( series_id platform_id..., 2626, False) 1.39 s in get_gene_fold_change(<Gse GSE20164>, False, 0, None) Loading data for GSE20168, id = 2628 389.58 ms in get_probes(2) 7.83 s in load_gse( series_id platform_id..., 2628, False) 1.84 s in get_gene_fold_change(<Gse GSE20168>, False, 0, None) Loading data for GSE20186, id = 2635 404.24 ms in get_probes(2) 10.81 s in load_gse( series_id platform_id..., 2635, False) 1.95 s in get_gene_fold_change(<Gse GSE20186>, False, 0, None) Loading data for GSE20291, id = 2660 392.91 ms in get_probes(2) 8.94 s in load_gse( series_id platform_id..., 2660, False) 2.11 s in get_gene_fold_change(<Gse GSE20291>, False, 0, None) Loading data for GSE20292, id = 2661 394.65 ms in get_probes(2) 7.81 s in load_gse( series_id platform_id..., 2661, False) 1.95 s in get_gene_fold_change(<Gse GSE20292>, False, 0, None) Loading data for GSE20295, id = 2663 396.72 ms in get_probes(2) 21.52 s in load_gse( series_id platform_id..., 2663, False) 3.01 s in get_gene_fold_change(<Gse GSE20295>, False, 0, None) Loading data for GSE20314, id = 2668 391.59 ms in get_probes(2) 4.05 s in load_gse( series_id platform_id..., 2668, False) 1.33 s in get_gene_fold_change(<Gse GSE20314>, False, 0, None) Loading data for GSE20333, id = 2674 265.56 ms in get_probes(80) 1.85 s in load_gse( series_id platform_id..., 2674, False) 802.23 ms in get_gene_fold_change(<Gse GSE20333>, False, 0, None) Loading data for GSE22491, id = 3215 630.85 ms in get_probes(53) 11.52 s in load_gse( series_id platform_id..., 3215, False) 442.88 ms in get_gene_fold_change(<Gse GSE22491>, False, 0, None) Loading data for GSE23290, id = 3414 544.57 ms in get_probes(280) 4.67 s in load_gse( series_id platform_id..., 3414, False) 2.12 s in get_gene_fold_change(<Gse GSE23290>, False, 0, None) Loading data for GSE24378, id = 3706 712.86 ms in get_probes(67) 16.62 s in load_gse( series_id platform_id..., 3706, False) 3.06 s in get_gene_fold_change(<Gse GSE24378>, False, 0, None) Loading data for GSE28894, id = 4829 391.75 ms in get_probes(3) 26.56 s in load_gse( series_id platform_id..., 4829, False) 4.50 s in get_gene_fold_change(<Gse GSE28894>, False, 0, None) Loading data for GSE34287, id = 6132 18.10 s in get_probes(563) 1064.22 s in load_gse( series_id platform_id..., 6132, False) 124.06 s in get_gene_fold_change(<Gse GSE34287>, False, 0, None) Loading data for GSE34516, id = 6187 549.74 ms in get_probes(280) 3.88 s in load_gse( series_id platform_id..., 6187, False) 3.69 s in get_gene_fold_change(<Gse GSE34516>, False, 0, None) Loading data for GSE6613, id = 11004 398.99 ms in get_probes(2) 19.66 s in load_gse( series_id platform_id..., 11004, False) 3.14 s in get_gene_fold_change(<Gse GSE6613>, False, 0, None) Loading data for GSE7621, id = 11300 638.21 ms in get_probes(4) 15.20 s in load_gse( series_id platform_id..., 11300, False) 3.42 s in get_gene_fold_change(<Gse GSE7621>, False, 0, None) Loading data for GSE8397, id = 11469 391.71 ms in get_probes(2) 344.13 ms in get_probes(50) 26.22 s in load_gse( series_id platform_id..., 11469, False) 4.15 s in get_gene_fold_change(<Gse GSE8397>, False, 0, None) Loading data for GSE43490, id = 12100 506.59 ms in get_probes(53) 10.85 s in load_gse( series_id platform_id..., 12100, False) 2.85 s in get_gene_fold_change(<Gse GSE43490>, False, 0, None) Loading data for GSE54282, id = 12418 384.50 ms in get_probes(1367) 4.69 s in load_gse( series_id platform_id..., 12418, False) 1.29 s in get_gene_fold_change(<Gse GSE54282>, False, 0, None) Loading data for GSE57475, id = 12634 496.94 ms in get_probes(389) 64.82 s in load_gse( series_id platform_id..., 12634, False) 7.32 s in get_gene_fold_change(<Gse GSE57475>, False, 0, None) 1596.87 s in Load/fold for DOID_14330 Meta-Analyzing DOID_14330 469.09 s in meta analysis of real data for DOID_14330 6.42 s in meta analysis of permutations for DOID_14330 146.15 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 476.15 s in Meta analysis for DOID_14330 DONE DOID_14330 analysis 2074.15 s in perform_analysis({'analysis_name': 'DOI...)
DOID:14330 Parkinson's disease 25
Started DOID_1595 analysis 2.30 s in get_analysis_df("Depression == 'Depres..., "MDD_control == 'MDD_c..., '') 2.30 s in Loading dataframe for DOID_1595 Matching sources: 19 Excluded 5 sources as single-class Stats: 14 sources, 14 series, 6 platforms, 533 samples Loading data and calculating fold change for DOID_1595 Loading data for GSE12654, id = 704 301.68 ms in get_probes(7) 8.12 s in load_gse( series_id platform_id..., 704, False) 1.20 s in get_gene_fold_change(<Gse GSE12654>, False, 0, None) Loading data for GSE19738, id = 2518 729.91 ms in get_probes(282) 40.29 s in load_gse( series_id platform_id..., 2518, False) 7.71 s in get_gene_fold_change(<Gse GSE19738>, False, 0, None) Loading data for GSE39653, id = 7363 770.22 ms in get_probes(674) 28.74 s in load_gse( series_id platform_id..., 7363, False) 3.49 s in get_gene_fold_change(<Gse GSE39653>, False, 0, None) Loading data for GSE54562, id = 10202 493.64 ms in get_probes(389) 14.14 s in load_gse( series_id platform_id..., 10202, False) 1.75 s in get_gene_fold_change(<Gse GSE54562>, False, 0, None) Loading data for GSE54563, id = 10203 504.69 ms in get_probes(389) 31.29 s in load_gse( series_id platform_id..., 10203, False) 3.42 s in get_gene_fold_change(<Gse GSE54563>, False, 0, None) Loading data for GSE54564, id = 10204 508.15 ms in get_probes(389) 24.86 s in load_gse( series_id platform_id..., 10204, False) 2.92 s in get_gene_fold_change(<Gse GSE54564>, False, 0, None) Loading data for GSE54565, id = 10205 633.66 ms in get_probes(4) 27.51 s in load_gse( series_id platform_id..., 10205, False) 3.53 s in get_gene_fold_change(<Gse GSE54565>, False, 0, None) Loading data for GSE54566, id = 10206 637.70 ms in get_probes(4) 24.99 s in load_gse( series_id platform_id..., 10206, False) 3.33 s in get_gene_fold_change(<Gse GSE54566>, False, 0, None) Loading data for GSE54567, id = 10207 629.40 ms in get_probes(4) 20.99 s in load_gse( series_id platform_id..., 10207, False) 3.54 s in get_gene_fold_change(<Gse GSE54567>, False, 0, None) Loading data for GSE54568, id = 10208 627.24 ms in get_probes(4) 21.87 s in load_gse( series_id platform_id..., 10208, False) 3.72 s in get_gene_fold_change(<Gse GSE54568>, False, 0, None) Loading data for GSE54570, id = 10210 394.17 ms in get_probes(2) 6.07 s in load_gse( series_id platform_id..., 10210, False) 1.89 s in get_gene_fold_change(<Gse GSE54570>, False, 0, None) Loading data for GSE54571, id = 10211 628.97 ms in get_probes(4) 20.05 s in load_gse( series_id platform_id..., 10211, False) 3.47 s in get_gene_fold_change(<Gse GSE54571>, False, 0, None) Loading data for GSE54572, id = 10212 625.43 ms in get_probes(4) 18.49 s in load_gse( series_id platform_id..., 10212, False) 3.26 s in get_gene_fold_change(<Gse GSE54572>, False, 0, None) Loading data for GSE54575, id = 10213 393.65 ms in get_probes(2) 5.83 s in load_gse( series_id platform_id..., 10213, False) 1.75 s in get_gene_fold_change(<Gse GSE54575>, False, 0, None) 344.13 s in Load/fold for DOID_1595 Meta-Analyzing DOID_1595 450.85 s in meta analysis of real data for DOID_1595 1.59 s in meta analysis of permutations for DOID_1595 133.99 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 453.05 s in Meta analysis for DOID_1595 DONE DOID_1595 analysis 799.72 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1595 endogenous depression 26
Started DOID_1612 analysis 1.78 s in get_analysis_df("breast_cancer == 'bre..., "breast_cancer_control..., '') 1.78 s in Loading dataframe for DOID_1612 Matching sources: 63 Excluded 33 sources as single-class Excluded 1 source by min samples Stats: 29 sources, 25 series, 16 platforms, 1819 samples Loading data and calculating fold change for DOID_1612 Loading data for GSE10780, id = 206 643.49 ms in get_probes(4) 118.98 s in load_gse( series_id platform_id..., 206, False) 13.50 s in get_gene_fold_change(<Gse GSE10780>, False, 0, None) Loading data for GSE10797, id = 212 397.68 ms in get_probes(9) 21.71 s in load_gse( series_id platform_id..., 212, False) 2.98 s in get_gene_fold_change(<Gse GSE10797>, False, 0, None) Loading data for GSE10810, id = 218 643.77 ms in get_probes(4) 16.22 s in load_gse( series_id platform_id..., 218, False) 4.79 s in get_gene_fold_change(<Gse GSE10810>, False, 0, None) Loading data for GSE10885, id = 238 370.63 ms in get_probes(83) 370.30 ms in get_probes(49) 40.35 s in load_gse( series_id platform_id..., 238, False) 6.74 s in get_gene_fold_change(<Gse GSE10885>, False, 0, None) Loading data for GSE10886, id = 239 378.77 ms in get_probes(83) 36.45 s in load_gse( series_id platform_id..., 239, False) 3.98 s in get_gene_fold_change(<Gse GSE10886>, False, 0, None) Loading data for GSE11545, id = 412 365.76 ms in get_probes(60) 25.41 s in load_gse( series_id platform_id..., 412, False) 1.84 s in get_gene_fold_change(<Gse GSE11545>, False, 0, None) Loading data for GSE13293, id = 864 115.03 ms in get_probes(399) 118.23 ms in get_probes(401) 22.48 s in load_gse( series_id platform_id..., 864, False) 872.85 ms in get_gene_fold_change(<Gse GSE13293>, False, 0, None) Loading data for GSE14548, id = 1177 704.84 ms in get_probes(67) 50.12 s in load_gse( series_id platform_id..., 1177, False) 6.45 s in get_gene_fold_change(<Gse GSE14548>, False, 0, None) Loading data for GSE15852, id = 1538 394.83 ms in get_probes(2) 18.36 s in load_gse( series_id platform_id..., 1538, False) 3.63 s in get_gene_fold_change(<Gse GSE15852>, False, 0, None) Loading data for GSE20266, id = 2653 625.49 ms in get_probes(4) 12.33 s in load_gse( series_id platform_id..., 2653, False) 3.01 s in get_gene_fold_change(<Gse GSE20266>, False, 0, None) Loading data for GSE20437, id = 2693 393.14 ms in get_probes(2) 8.86 s in load_gse( series_id platform_id..., 2693, False) 2.32 s in get_gene_fold_change(<Gse GSE20437>, False, 0, None) Loading data for GSE21947, id = 3053 391.14 ms in get_probes(2) 6.94 s in load_gse( series_id platform_id..., 3053, False) 1.60 s in get_gene_fold_change(<Gse GSE21947>, False, 0, None) Loading data for GSE22384, id = 3185 1.94 s in get_probes(517) 1.56 s in get_probes(519) 2.03 s in get_probes(520) 284.82 s in load_gse( series_id platform_id..., 3185, False) 39.56 s in get_gene_fold_change(<Gse GSE22384>, False, 0, None) Loading data for GSE26910, id = 4354 634.81 ms in get_probes(4) 15.90 s in load_gse( series_id platform_id..., 4354, False) 2.57 s in get_gene_fold_change(<Gse GSE26910>, False, 0, None) Loading data for GSE27120, id = 4400 630.03 ms in get_probes(4) 52.33 s in load_gse( series_id platform_id..., 4400, False) 3.75 s in get_gene_fold_change(<Gse GSE27120>, False, 0, None) Loading data for GSE29044, id = 4880 627.92 ms in get_probes(4) 63.95 s in load_gse( series_id platform_id..., 4880, False) 8.85 s in get_gene_fold_change(<Gse GSE29044>, False, 0, None) Loading data for GSE29431, id = 4975 627.35 ms in get_probes(4) 32.62 s in load_gse( series_id platform_id..., 4975, False) 5.90 s in get_gene_fold_change(<Gse GSE29431>, False, 0, None) Loading data for GSE32641, id = 5764 368.45 ms in get_probes(49) 26.35 s in load_gse( series_id platform_id..., 5764, False) 3.91 s in get_gene_fold_change(<Gse GSE32641>, False, 0, None) Loading data for GSE33447, id = 5940 704.63 ms in get_probes(1010) 9.58 s in load_gse( series_id platform_id..., 5940, False) 2.20 s in get_gene_fold_change(<Gse GSE33447>, False, 0, None) Loading data for GSE36295, id = 6622 414.92 ms in get_probes(283) 17.57 s in load_gse( series_id platform_id..., 6622, False) 2.35 s in get_gene_fold_change(<Gse GSE36295>, False, 0, None) Loading data for GSE38959, id = 7206 708.55 ms in get_probes(10) 22.11 s in load_gse( series_id platform_id..., 7206, False) 3.49 s in get_gene_fold_change(<Gse GSE38959>, False, 0, None) Loading data for GSE42568, id = 8064 626.59 ms in get_probes(4) 70.99 s in load_gse( series_id platform_id..., 8064, False) 8.84 s in get_gene_fold_change(<Gse GSE42568>, False, 0, None) Loading data for GSE50567, id = 9572 644.37 ms in get_probes(4) 27.73 s in load_gse( series_id platform_id..., 9572, False) 3.64 s in get_gene_fold_change(<Gse GSE50567>, False, 0, None) Loading data for GSE57297, id = 10562 543.38 ms in get_probes(1339) 20.45 s in load_gse( series_id platform_id..., 10562, False) 3.09 s in get_gene_fold_change(<Gse GSE57297>, False, 0, None) Loading data for GSE6130, id = 10873 364.99 ms in get_probes(49) 10.84 s in load_gse( series_id platform_id..., 10873, False) 2.31 s in get_gene_fold_change(<Gse GSE6130>, False, 0, None) 1187.38 s in Load/fold for DOID_1612 Meta-Analyzing DOID_1612 492.34 s in meta analysis of real data for DOID_1612 3.72 s in meta analysis of permutations for DOID_1612 134.94 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 496.68 s in Meta analysis for DOID_1612 DONE DOID_1612 analysis 1686.18 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1612 breast cancer 27
Started DOID_1686 analysis 1.70 s in get_analysis_df("glaucoma == 'glaucoma'", "glaucoma_control == '..., '') 1.70 s in Loading dataframe for DOID_1686 Matching sources: 11 Excluded 1 source as single-class Excluded 3 sources by min samples Stats: 7 sources, 6 series, 5 platforms, 138 samples Loading data and calculating fold change for DOID_1686 Loading data for GSE2378, id = 3554 309.04 ms in get_probes(7) 3.09 s in load_gse( series_id platform_id..., 3554, False) 748.82 ms in get_gene_fold_change(<Gse GSE2378>, False, 0, None) Loading data for GSE27276, id = 4448 404.38 ms in get_probes(39) 22.35 s in load_gse( series_id platform_id..., 4448, False) 2.07 s in get_gene_fold_change(<Gse GSE27276>, False, 0, None) Loading data for GSE45570, id = 8697 544.98 ms in get_probes(280) 5.84 s in load_gse( series_id platform_id..., 8697, False) 2.06 s in get_gene_fold_change(<Gse GSE45570>, False, 0, None) Loading data for GSE9944, id = 11879 394.91 ms in get_probes(9) 472.41 ms in get_probes(7) 12.78 s in load_gse( series_id platform_id..., 11879, False) 3.18 s in get_gene_fold_change(<Gse GSE9944>, False, 0, None) Loading data for GSE27057, id = 11946 38.89 ms in get_probes(1703) 977.82 ms in load_gse( series_id platform_id..., 11946, False) 192.35 ms in get_gene_fold_change(<Gse GSE27057>, False, 0, None) Loading data for GSE27058, id = 11947 39.14 ms in get_probes(1703) 899.34 ms in load_gse( series_id platform_id..., 11947, False) 175.76 ms in get_gene_fold_change(<Gse GSE27058>, False, 0, None) 56.01 s in Load/fold for DOID_1686 Meta-Analyzing DOID_1686 336.07 s in meta analysis of real data for DOID_1686 319.10 ms in meta analysis of permutations for DOID_1686 135.90 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 336.99 s in Meta analysis for DOID_1686 DONE DOID_1686 analysis 394.90 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1686 glaucoma 28
Started DOID_1793 analysis 893.86 ms in get_analysis_df("pancreatic_cancer == ..., "pancreatic_cancer_con..., '') 898.07 ms in Loading dataframe for DOID_1793 Matching sources: 28 Excluded 16 sources as single-class Excluded 3 sources by min samples Stats: 9 sources, 9 series, 5 platforms, 250 samples Loading data and calculating fold change for DOID_1793 Loading data for GSE14245, id = 1080 637.77 ms in get_probes(4) 13.65 s in load_gse( series_id platform_id..., 1080, False) 2.49 s in get_gene_fold_change(<Gse GSE14245>, False, 0, None) Loading data for GSE15932, id = 1550 640.27 ms in get_probes(4) 20.37 s in load_gse( series_id platform_id..., 1550, False) 3.43 s in get_gene_fold_change(<Gse GSE15932>, False, 0, None) Loading data for GSE19279, id = 2400 404.20 ms in get_probes(2) 5.50 s in load_gse( series_id platform_id..., 2400, False) 1.15 s in get_gene_fold_change(<Gse GSE19279>, False, 0, None) Loading data for GSE19650, id = 2485 647.77 ms in get_probes(4) 14.47 s in load_gse( series_id platform_id..., 2485, False) 3.32 s in get_gene_fold_change(<Gse GSE19650>, False, 0, None) Loading data for GSE21163, id = 2867 4.63 s in get_probes(54) 70.25 s in load_gse( series_id platform_id..., 2867, False) 24.09 s in get_gene_fold_change(<Gse GSE21163>, False, 0, None) Loading data for GSE22780, id = 3283 626.75 ms in get_probes(4) 12.48 s in load_gse( series_id platform_id..., 3283, False) 2.87 s in get_gene_fold_change(<Gse GSE22780>, False, 0, None) Loading data for GSE23397, id = 3450 4.69 s in get_probes(54) 84.41 s in load_gse( series_id platform_id..., 3450, False) 24.03 s in get_gene_fold_change(<Gse GSE23397>, False, 0, None) Loading data for GSE28735, id = 4791 445.42 ms in get_probes(283) 25.83 s in load_gse( series_id platform_id..., 4791, False) 4.24 s in get_gene_fold_change(<Gse GSE28735>, False, 0, None) Loading data for GSE30134, id = 5154 149.89 ms in get_probes(963) 1.56 s in load_gse( series_id platform_id..., 5154, False) 433.51 ms in get_gene_fold_change(<Gse GSE30134>, False, 0, None) 320.62 s in Load/fold for DOID_1793 Meta-Analyzing DOID_1793 440.56 s in meta analysis of real data for DOID_1793 3.26 s in meta analysis of permutations for DOID_1793 137.09 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 444.43 s in Meta analysis for DOID_1793 DONE DOID_1793 analysis 766.17 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1793 pancreatic cancer 29
Started DOID_1909 analysis 1.87 s in get_analysis_df("melanoma == 'melanoma'", "melanoma_control == '..., '') 1.87 s in Loading dataframe for DOID_1909 Matching sources: 48 Excluded 35 sources as single-class Excluded 1 source by min samples Stats: 12 sources, 9 series, 5 platforms, 487 samples Loading data and calculating fold change for DOID_1909 Loading data for GSE11907, id = 488 401.26 ms in get_probes(2) 350.03 ms in get_probes(50) 101.16 s in load_gse( series_id platform_id..., 488, False) 4.24 s in get_gene_fold_change(<Gse GSE11907>, False, 0, None) Loading data for GSE15605, id = 1479 843.89 ms in get_probes(4) 40.85 s in load_gse( series_id platform_id..., 1479, False) 3.87 s in get_gene_fold_change(<Gse GSE15605>, False, 0, None) Loading data for GSE3189, id = 5563 400.24 ms in get_probes(2) 13.98 s in load_gse( series_id platform_id..., 5563, False) 2.74 s in get_gene_fold_change(<Gse GSE3189>, False, 0, None) Loading data for GSE44660, id = 8515 545.60 ms in get_probes(280) 6.38 s in load_gse( series_id platform_id..., 8515, False) 2.51 s in get_gene_fold_change(<Gse GSE44660>, False, 0, None) Loading data for GSE46517, id = 8884 397.11 ms in get_probes(2) 32.56 s in load_gse( series_id platform_id..., 8884, False) 4.01 s in get_gene_fold_change(<Gse GSE46517>, False, 0, None) Loading data for GSE4840, id = 9237 415.91 ms in get_probes(2) 426.68 ms in get_probes(50) 9.22 s in load_gse( series_id platform_id..., 9237, False) 2.54 s in get_gene_fold_change(<Gse GSE4840>, False, 0, None) Loading data for GSE4845, id = 9251 393.28 ms in get_probes(2) 436.85 ms in get_probes(50) 15.27 s in load_gse( series_id platform_id..., 9251, False) 3.12 s in get_gene_fold_change(<Gse GSE4845>, False, 0, None) Loading data for GSE7469, id = 11250 712.27 ms in get_probes(26) 12.43 s in load_gse( series_id platform_id..., 11250, False) 2.49 s in get_gene_fold_change(<Gse GSE7469>, False, 0, None) Loading data for GSE7553, id = 11277 622.82 ms in get_probes(4) 48.66 s in load_gse( series_id platform_id..., 11277, False) 5.80 s in get_gene_fold_change(<Gse GSE7553>, False, 0, None) 314.85 s in Load/fold for DOID_1909 Meta-Analyzing DOID_1909 417.25 s in meta analysis of real data for DOID_1909 1.05 s in meta analysis of permutations for DOID_1909 134.94 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 418.92 s in Meta analysis for DOID_1909 DONE DOID_1909 analysis 735.87 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1909 melanoma 30
Started DOID_1936 analysis 1.12 s in get_analysis_df("atherosclerosis == 'a..., "atherosclerosis_contr..., '') 1.13 s in Loading dataframe for DOID_1936 Matching sources: 6 Excluded 1 source as single-class Excluded 1 source by min samples Stats: 4 sources, 4 series, 4 platforms, 346 samples Loading data and calculating fold change for DOID_1936 Loading data for GSE20129, id = 2612 385.46 ms in get_probes(3) 30.05 s in load_gse( series_id platform_id..., 2612, False) 4.61 s in get_gene_fold_change(<Gse GSE20129>, False, 0, None) Loading data for GSE23746, id = 3545 375.64 ms in get_probes(74) 15.65 s in load_gse( series_id platform_id..., 3545, False) 2.66 s in get_gene_fold_change(<Gse GSE23746>, False, 0, None) Loading data for GSE37356, id = 6873 517.42 ms in get_probes(674) 29.25 s in load_gse( series_id platform_id..., 6873, False) 4.64 s in get_gene_fold_change(<Gse GSE37356>, False, 0, None) Loading data for GSE9874, id = 11861 389.88 ms in get_probes(2) 13.91 s in load_gse( series_id platform_id..., 11861, False) 2.91 s in get_gene_fold_change(<Gse GSE9874>, False, 0, None) 104.86 s in Load/fold for DOID_1936 Meta-Analyzing DOID_1936 367.74 s in meta analysis of real data for DOID_1936 306.02 ms in meta analysis of permutations for DOID_1936 136.14 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 368.65 s in Meta analysis for DOID_1936 DONE DOID_1936 analysis 474.82 s in perform_analysis({'analysis_name': 'DOI...)
DOID:1936 atherosclerosis 31
Started DOID_219 analysis 791.29 ms in get_analysis_df("colon_cancer == 'colo..., "colon_cancer_control ..., '') 795.60 ms in Loading dataframe for DOID_219 Matching sources: 5 Excluded 1 source as single-class Stats: 4 sources, 3 series, 4 platforms, 275 samples Loading data and calculating fold change for DOID_219 Loading data for GSE36400, id = 6646 542.89 ms in get_probes(280) 5.46 s in load_gse( series_id platform_id..., 6646, False) 1.56 s in get_gene_fold_change(<Gse GSE36400>, False, 0, None) Loading data for GSE7466, id = 11249 75.17 ms in get_probes(821) 74.89 ms in get_probes(823) 13.50 s in load_gse( series_id platform_id..., 11249, False) 552.06 ms in get_gene_fold_change(<Gse GSE7466>, False, 0, None) Loading data for GSE68468, id = 13736 390.12 ms in get_probes(2) 83.88 s in load_gse( series_id platform_id..., 13736, False) 8.33 s in get_gene_fold_change(<Gse GSE68468>, False, 0, None) 114.04 s in Load/fold for DOID_219 Meta-Analyzing DOID_219 220.42 s in meta analysis of real data for DOID_219 191.45 ms in meta analysis of permutations for DOID_219 135.90 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 221.19 s in Meta analysis for DOID_219 DONE DOID_219 analysis 336.20 s in perform_analysis({'analysis_name': 'DOI...)
DOID:219 colon cancer 32
Started DOID_2377 analysis 960.37 ms in get_analysis_df("MS == 'MS'", "MS_control == 'MS_con..., '') 964.60 ms in Loading dataframe for DOID_2377 Matching sources: 27 Excluded 3 sources as single-class Excluded 2 sources by min samples Stats: 22 sources, 21 series, 9 platforms, 1781 samples Loading data and calculating fold change for DOID_2377 Loading data for GSE10064, id = 17 412.18 ms in get_probes(12) 10.82 s in load_gse( series_id platform_id..., 17, False) 1.67 s in get_gene_fold_change(<Gse GSE10064>, False, 0, None) Loading data for GSE13732, id = 973 633.60 ms in get_probes(4) 73.07 s in load_gse( series_id platform_id..., 973, False) 8.85 s in get_gene_fold_change(<Gse GSE13732>, False, 0, None) Loading data for GSE14895, id = 1280 388.18 ms in get_probes(9) 394.69 ms in get_probes(2) 15.78 s in load_gse( series_id platform_id..., 1280, False) 3.24 s in get_gene_fold_change(<Gse GSE14895>, False, 0, None) Loading data for GSE16461, id = 1688 633.89 ms in get_probes(4) 12.62 s in load_gse( series_id platform_id..., 1688, False) 2.80 s in get_gene_fold_change(<Gse GSE16461>, False, 0, None) Loading data for GSE17048, id = 1837 686.11 ms in get_probes(389) 56.78 s in load_gse( series_id platform_id..., 1837, False) 6.34 s in get_gene_fold_change(<Gse GSE17048>, False, 0, None) Loading data for GSE17393, id = 1917 387.54 ms in get_probes(9) 5.45 s in load_gse( series_id platform_id..., 1917, False) 1.57 s in get_gene_fold_change(<Gse GSE17393>, False, 0, None) Loading data for GSE17449, id = 1929 387.68 ms in get_probes(9) 8.37 s in load_gse( series_id platform_id..., 1929, False) 1.87 s in get_gene_fold_change(<Gse GSE17449>, False, 0, None) Loading data for GSE21942, id = 3050 623.83 ms in get_probes(4) 15.67 s in load_gse( series_id platform_id..., 3050, False) 3.52 s in get_gene_fold_change(<Gse GSE21942>, False, 0, None) Loading data for GSE23832, id = 3564 408.93 ms in get_probes(283) 4.66 s in load_gse( series_id platform_id..., 3564, False) 1.59 s in get_gene_fold_change(<Gse GSE23832>, False, 0, None) Loading data for GSE26484, id = 4227 620.18 ms in get_probes(4) 9.96 s in load_gse( series_id platform_id..., 4227, False) 2.50 s in get_gene_fold_change(<Gse GSE26484>, False, 0, None) Loading data for GSE27688, id = 4537 638.91 ms in get_probes(53) 12.57 s in load_gse( series_id platform_id..., 4537, False) 2.75 s in get_gene_fold_change(<Gse GSE27688>, False, 0, None) Loading data for GSE32645, id = 5766 682.50 ms in get_probes(10) 10.10 s in load_gse( series_id platform_id..., 5766, False) 1.82 s in get_gene_fold_change(<Gse GSE32645>, False, 0, None) Loading data for GSE32915, id = 5810 652.66 ms in get_probes(10) 11.46 s in load_gse( series_id platform_id..., 5810, False) 2.09 s in get_gene_fold_change(<Gse GSE32915>, False, 0, None) Loading data for GSE32988, id = 5831 659.84 ms in get_probes(53) 24.66 s in load_gse( series_id platform_id..., 5831, False) 3.46 s in get_gene_fold_change(<Gse GSE32988>, False, 0, None) Loading data for GSE41848, id = 7884 39.78 ms in get_probes(1289) 44.96 s in load_gse( series_id platform_id..., 7884, False) 307.71 ms in get_gene_fold_change(<Gse GSE41848>, False, 0, None) Loading data for GSE41849, id = 7885 39.34 ms in get_probes(1289) 20.77 s in load_gse( series_id platform_id..., 7885, False) 231.72 ms in get_gene_fold_change(<Gse GSE41849>, False, 0, None) Loading data for GSE41850, id = 7887 39.17 ms in get_probes(1289) 160.56 s in load_gse( series_id platform_id..., 7887, False) 400.87 ms in get_gene_fold_change(<Gse GSE41850>, False, 0, None) Loading data for GSE41890, id = 7897 414.89 ms in get_probes(283) 24.10 s in load_gse( series_id platform_id..., 7897, False) 3.31 s in get_gene_fold_change(<Gse GSE41890>, False, 0, None) Loading data for GSE43591, id = 8314 619.29 ms in get_probes(4) 15.75 s in load_gse( series_id platform_id..., 8314, False) 3.02 s in get_gene_fold_change(<Gse GSE43591>, False, 0, None) Loading data for GSE37750, id = 12030 619.96 ms in get_probes(4) 18.00 s in load_gse( series_id platform_id..., 12030, False) 3.28 s in get_gene_fold_change(<Gse GSE37750>, False, 0, None) Loading data for GSE59085, id = 12788 620.90 ms in get_probes(4) 16.50 s in load_gse( series_id platform_id..., 12788, False) 3.22 s in get_gene_fold_change(<Gse GSE59085>, False, 0, None) 637.76 s in Load/fold for DOID_2377 Meta-Analyzing DOID_2377 471.19 s in meta analysis of real data for DOID_2377 1.95 s in meta analysis of permutations for DOID_2377 129.94 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 473.76 s in Meta analysis for DOID_2377 DONE DOID_2377 analysis 1112.79 s in perform_analysis({'analysis_name': 'DOI...)
DOID:2377 multiple sclerosis 33
Started DOID_2394 analysis 1.07 s in get_analysis_df("ovarian_cancer == 'ov..., "ovarian_cancer_contro..., '') 1.08 s in Loading dataframe for DOID_2394 Matching sources: 4 Excluded 1 source as single-class Stats: 3 sources, 3 series, 2 platforms, 123 samples Loading data and calculating fold change for DOID_2394 Loading data for GSE29220, id = 4918 634.25 ms in get_probes(4) 16.86 s in load_gse( series_id platform_id..., 4918, False) 3.24 s in get_gene_fold_change(<Gse GSE29220>, False, 0, None) Loading data for GSE31682, id = 5516 350.25 ms in get_probes(60) 18.72 s in load_gse( series_id platform_id..., 5516, False) 2.62 s in get_gene_fold_change(<Gse GSE31682>, False, 0, None) Loading data for GSE38666, id = 7137 624.42 ms in get_probes(4) 25.57 s in load_gse( series_id platform_id..., 7137, False) 3.87 s in get_gene_fold_change(<Gse GSE38666>, False, 0, None) 72.05 s in Load/fold for DOID_2394 Meta-Analyzing DOID_2394 393.79 s in meta analysis of real data for DOID_2394 335.69 ms in meta analysis of permutations for DOID_2394 128.03 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 394.72 s in Meta analysis for DOID_2394 DONE DOID_2394 analysis 468.02 s in perform_analysis({'analysis_name': 'DOI...)
DOID:2394 ovarian cancer 34
Started DOID_2531 analysis 1.64 s in get_analysis_df("AML_Tissue == 'AML_Ti..., "AML_Control == 'AML_C..., '') 1.64 s in Loading dataframe for DOID_2531 Matching sources: 95 Excluded 82 sources as single-class Stats: 13 sources, 13 series, 5 platforms, 755 samples Loading data and calculating fold change for DOID_2531 Loading data for GSE10746, id = 198 636.98 ms in get_probes(4) 9.82 s in load_gse( series_id platform_id..., 198, False) 2.61 s in get_gene_fold_change(<Gse GSE10746>, False, 0, None) Loading data for GSE13591, id = 938 401.84 ms in get_probes(2) 40.19 s in load_gse( series_id platform_id..., 938, False) 4.67 s in get_gene_fold_change(<Gse GSE13591>, False, 0, None) Loading data for GSE17054, id = 1838 639.44 ms in get_probes(4) 14.18 s in load_gse( series_id platform_id..., 1838, False) 2.69 s in get_gene_fold_change(<Gse GSE17054>, False, 0, None) Loading data for GSE24870, id = 3848 408.95 ms in get_probes(9) 10.12 s in load_gse( series_id platform_id..., 3848, False) 2.44 s in get_gene_fold_change(<Gse GSE24870>, False, 0, None) Loading data for GSE27838, id = 4550 626.86 ms in get_probes(4) 17.50 s in load_gse( series_id platform_id..., 4550, False) 3.77 s in get_gene_fold_change(<Gse GSE27838>, False, 0, None) Loading data for GSE36474, id = 6658 623.81 ms in get_probes(4) 8.55 s in load_gse( series_id platform_id..., 6658, False) 1.84 s in get_gene_fold_change(<Gse GSE36474>, False, 0, None) Loading data for GSE39754, id = 7392 544.41 ms in get_probes(280) 38.87 s in load_gse( series_id platform_id..., 7392, False) 9.43 s in get_gene_fold_change(<Gse GSE39754>, False, 0, None) Loading data for GSE43176, id = 8218 411.94 ms in get_probes(2) 20.50 s in load_gse( series_id platform_id..., 8218, False) 3.06 s in get_gene_fold_change(<Gse GSE43176>, False, 0, None) Loading data for GSE5900, id = 10734 643.24 ms in get_probes(4) 41.88 s in load_gse( series_id platform_id..., 10734, False) 4.05 s in get_gene_fold_change(<Gse GSE5900>, False, 0, None) Loading data for GSE6477, id = 10950 402.80 ms in get_probes(2) 30.19 s in load_gse( series_id platform_id..., 10950, False) 5.53 s in get_gene_fold_change(<Gse GSE6477>, False, 0, None) Loading data for GSE6691, id = 11013 392.90 ms in get_probes(2) 13.11 s in load_gse( series_id platform_id..., 11013, False) 1.60 s in get_gene_fold_change(<Gse GSE6691>, False, 0, None) Loading data for GSE7116, id = 11154 626.38 ms in get_probes(4) 16.30 s in load_gse( series_id platform_id..., 11154, False) 3.44 s in get_gene_fold_change(<Gse GSE7116>, False, 0, None) Loading data for GSE983, id = 11844 218.45 ms in get_probes(22) 1.87 s in load_gse( series_id platform_id..., 11844, False) 663.65 ms in get_gene_fold_change(<Gse GSE983>, False, 0, None) 314.45 s in Load/fold for DOID_2531 Meta-Analyzing DOID_2531 405.78 s in meta analysis of real data for DOID_2531 1.33 s in meta analysis of permutations for DOID_2531 133.99 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 407.71 s in Meta analysis for DOID_2531 DONE DOID_2531 analysis 724.11 s in perform_analysis({'analysis_name': 'DOI...)
DOID:2531 hematologic cancer 35
Started DOID_263 analysis 1.22 s in get_analysis_df("RCC == 'RCC'", "RCC_Control == 'RCC_C..., '') 1.22 s in Loading dataframe for DOID_263 Matching sources: 60 Excluded 37 sources as single-class Excluded 2 sources by min samples Stats: 21 sources, 17 series, 13 platforms, 1536 samples Loading data and calculating fold change for DOID_263 Loading data for GSE12606, id = 685 625.26 ms in get_probes(4) 9.55 s in load_gse( series_id platform_id..., 685, False) 2.57 s in get_gene_fold_change(<Gse GSE12606>, False, 0, None) Loading data for GSE14762, id = 1230 40.30 ms in get_probes(471) 4.45 s in load_gse( series_id platform_id..., 1230, False) 320.08 ms in get_gene_fold_change(<Gse GSE14762>, False, 0, None) Loading data for GSE15641, id = 1490 391.32 ms in get_probes(2) 18.86 s in load_gse( series_id platform_id..., 1490, False) 3.17 s in get_gene_fold_change(<Gse GSE15641>, False, 0, None) Loading data for GSE17816, id = 2030 333.72 ms in get_probes(588) 10.10 s in load_gse( series_id platform_id..., 2030, False) 2.02 s in get_gene_fold_change(<Gse GSE17816>, False, 0, None) Loading data for GSE17818, id = 2031 347.50 ms in get_probes(588) 24.94 s in load_gse( series_id platform_id..., 2031, False) 3.47 s in get_gene_fold_change(<Gse GSE17818>, False, 0, None) Loading data for GSE17895, id = 2051 344.39 ms in get_probes(588) 32.86 s in load_gse( series_id platform_id..., 2051, False) 4.56 s in get_gene_fold_change(<Gse GSE17895>, False, 0, None) Loading data for GSE26574, id = 4253 364.97 ms in get_probes(875) 18.31 s in load_gse( series_id platform_id..., 4253, False) 1.54 s in get_gene_fold_change(<Gse GSE26574>, False, 0, None) Loading data for GSE3, id = 5117 602.69 ms in get_probes(258) 570.71 ms in get_probes(259) 209.46 s in load_gse( series_id platform_id..., 5117, False) 12.90 s in get_gene_fold_change(<Gse GSE3>, False, 0, None) Loading data for GSE36895, id = 6744 637.64 ms in get_probes(4) 51.41 s in load_gse( series_id platform_id..., 6744, False) 5.08 s in get_gene_fold_change(<Gse GSE36895>, False, 0, None) Loading data for GSE40435, id = 7557 534.00 ms in get_probes(674) 109.20 s in load_gse( series_id platform_id..., 7557, False) 9.90 s in get_gene_fold_change(<Gse GSE40435>, False, 0, None) Loading data for GSE46699, id = 8919 627.50 ms in get_probes(4) 81.27 s in load_gse( series_id platform_id..., 8919, False) 10.05 s in get_gene_fold_change(<Gse GSE46699>, False, 0, None) Loading data for GSE47032, id = 8982 541.08 ms in get_probes(280) 4.84 s in get_probes(54) 70.78 s in load_gse( series_id platform_id..., 8982, False) 25.03 s in get_gene_fold_change(<Gse GSE47032>, False, 0, None) Loading data for GSE53000, id = 9972 424.36 ms in get_probes(283) 26.09 s in load_gse( series_id platform_id..., 9972, False) 3.17 s in get_gene_fold_change(<Gse GSE53000>, False, 0, None) Loading data for GSE53757, id = 10076 634.42 ms in get_probes(4) 81.12 s in load_gse( series_id platform_id..., 10076, False) 11.13 s in get_gene_fold_change(<Gse GSE53757>, False, 0, None) Loading data for GSE6344, id = 10912 392.80 ms in get_probes(2) 334.30 ms in get_probes(50) 11.07 s in load_gse( series_id platform_id..., 10912, False) 2.79 s in get_gene_fold_change(<Gse GSE6344>, False, 0, None) Loading data for GSE7367, id = 11222 154.50 ms in get_probes(963) 2.98 s in load_gse( series_id platform_id..., 11222, False) 575.03 ms in get_gene_fold_change(<Gse GSE7367>, False, 0, None) Loading data for GSE781, id = 11344 417.10 ms in get_probes(2) 352.93 ms in get_probes(50) 10.61 s in load_gse( series_id platform_id..., 11344, False) 2.31 s in get_gene_fold_change(<Gse GSE781>, False, 0, None) 881.23 s in Load/fold for DOID_263 Meta-Analyzing DOID_263 456.84 s in meta analysis of real data for DOID_263 2.83 s in meta analysis of permutations for DOID_263 140.19 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 460.28 s in Meta analysis for DOID_263 DONE DOID_263 analysis 1343.04 s in perform_analysis({'analysis_name': 'DOI...)
DOID:263 kidney cancer 36
Started DOID_2841 analysis 1.49 s in get_analysis_df("asthma == 'asthma'", "asthma_control == 'as..., '') 1.50 s in Loading dataframe for DOID_2841 Matching sources: 14 Stats: 14 sources, 13 series, 9 platforms, 1486 samples Loading data and calculating fold change for DOID_2841 Loading data for GSE19187, id = 2377 416.18 ms in get_probes(283) 14.56 s in load_gse( series_id platform_id..., 2377, False) 2.04 s in get_gene_fold_change(<Gse GSE19187>, False, 0, None) Loading data for GSE27011, id = 4384 438.88 ms in get_probes(283) 22.72 s in load_gse( series_id platform_id..., 4384, False) 2.95 s in get_gene_fold_change(<Gse GSE27011>, False, 0, None) Loading data for GSE27876, id = 4561 693.51 ms in get_probes(53) 10.67 s in load_gse( series_id platform_id..., 4561, False) 2.19 s in get_gene_fold_change(<Gse GSE27876>, False, 0, None) Loading data for GSE4302, id = 8180 628.39 ms in get_probes(4) 75.85 s in load_gse( series_id platform_id..., 8180, False) 8.29 s in get_gene_fold_change(<Gse GSE4302>, False, 0, None) Loading data for GSE44037, id = 8399 897.74 ms in get_probes(901) 20.98 s in load_gse( series_id platform_id..., 8399, False) 3.21 s in get_gene_fold_change(<Gse GSE44037>, False, 0, None) Loading data for GSE46171, id = 8818 725.52 ms in get_probes(1363) 688.35 ms in get_probes(53) 42.90 s in load_gse( series_id platform_id..., 8818, False) 6.18 s in get_gene_fold_change(<Gse GSE46171>, False, 0, None) Loading data for GSE5272, id = 9938 735.95 ms in get_probes(26) 129.40 s in load_gse( series_id platform_id..., 9938, False) 9.59 s in get_gene_fold_change(<Gse GSE5272>, False, 0, None) Loading data for GSE54605, id = 10215 42.46 ms in get_probes(1454) 337.32 ms in load_gse( series_id platform_id..., 10215, False) 327.41 ms in get_gene_fold_change(<Gse GSE54605>, False, 0, None) Loading data for GSE56396, id = 10453 412.76 ms in get_probes(283) 29.16 s in load_gse( series_id platform_id..., 10453, False) 4.82 s in get_gene_fold_change(<Gse GSE56396>, False, 0, None) Loading data for GSE8052, id = 11413 642.58 ms in get_probes(4) 180.37 s in load_gse( series_id platform_id..., 11413, False) 27.32 s in get_gene_fold_change(<Gse GSE8052>, False, 0, None) Loading data for GSE8190, id = 11437 768.50 ms in get_probes(26) 135.63 s in load_gse( series_id platform_id..., 11437, False) 8.79 s in get_gene_fold_change(<Gse GSE8190>, False, 0, None) Loading data for GSE40732, id = 12071 773.59 ms in get_probes(1269) 80.98 s in load_gse( series_id platform_id..., 12071, False) 12.38 s in get_gene_fold_change(<Gse GSE40732>, False, 0, None) Loading data for GSE67472, id = 13661 39.90 ms in get_probes(1369) 22.81 s in load_gse( series_id platform_id..., 13661, False) 310.30 ms in get_gene_fold_change(<Gse GSE67472>, False, 0, None) 859.46 s in Load/fold for DOID_2841 Meta-Analyzing DOID_2841 467.77 s in meta analysis of real data for DOID_2841 1.24 s in meta analysis of permutations for DOID_2841 134.94 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 469.63 s in Meta analysis for DOID_2841 DONE DOID_2841 analysis 1330.83 s in perform_analysis({'analysis_name': 'DOI...)
DOID:2841 asthma 37
Started DOID_2986 analysis 1.06 s in get_analysis_df("IgA_nephropathy == 'I..., "IgA_nephropathy_contr..., '') 1.06 s in Loading dataframe for DOID_2986 Matching sources: 6 Stats: 6 sources, 5 series, 3 platforms, 161 samples Loading data and calculating fold change for DOID_2986 Loading data for GSE14795, id = 1241 400.31 ms in get_probes(2) 6.06 s in load_gse( series_id platform_id..., 1241, False) 1.70 s in get_gene_fold_change(<Gse GSE14795>, False, 0, None) Loading data for GSE35487, id = 6431 391.72 ms in get_probes(2) 9.15 s in load_gse( series_id platform_id..., 6431, False) 1.97 s in get_gene_fold_change(<Gse GSE35487>, False, 0, None) Loading data for GSE35488, id = 6432 284.37 ms in get_probes(1019) 5.52 s in load_gse( series_id platform_id..., 6432, False) 1.27 s in get_gene_fold_change(<Gse GSE35488>, False, 0, None) Loading data for GSE35489, id = 6433 294.34 ms in get_probes(1019) 575.04 ms in get_probes(2) 14.90 s in load_gse( series_id platform_id..., 6433, False) 2.08 s in get_gene_fold_change(<Gse GSE35489>, False, 0, None) Loading data for GSE58539, id = 12726 530.63 ms in get_probes(674) 12.73 s in load_gse( series_id platform_id..., 12726, False) 2.36 s in get_gene_fold_change(<Gse GSE58539>, False, 0, None) 59.49 s in Load/fold for DOID_2986 Meta-Analyzing DOID_2986 272.07 s in meta analysis of real data for DOID_2986 367.14 ms in meta analysis of permutations for DOID_2986 135.18 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 273.03 s in Meta analysis for DOID_2986 DONE DOID_2986 analysis 333.76 s in perform_analysis({'analysis_name': 'DOI...)
DOID:2986 IgA glomerulonephritis 38
Started DOID_2998 analysis 860.02 ms in get_analysis_df("testicular_cancer == ..., "testicular_cancer_con..., '') 864.55 ms in Loading dataframe for DOID_2998 Matching sources: 0 FAIL Can't perform meta-analysis on no data 929.62 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:2998 testicular cancer 39
Started DOID_3083 analysis 882.74 ms in get_analysis_df("COPD == 'COPD'", "COPD_control == 'COPD..., '') 887.22 ms in Loading dataframe for DOID_3083 Matching sources: 22 Excluded 4 sources as single-class Stats: 18 sources, 17 series, 7 platforms, 1720 samples Loading data and calculating fold change for DOID_3083 Loading data for GSE10006, id = 4 629.08 ms in get_probes(4) 48.65 s in load_gse( series_id platform_id..., 4, False) 7.68 s in get_gene_fold_change(<Gse GSE10006>, False, 0, None) Loading data for GSE11784, id = 450 630.11 ms in get_probes(4) 86.30 s in load_gse( series_id platform_id..., 450, False) 11.75 s in get_gene_fold_change(<Gse GSE11784>, False, 0, None) Loading data for GSE12472, id = 652 487.48 ms in get_probes(26) 9.32 s in load_gse( series_id platform_id..., 652, False) 3.72 s in get_gene_fold_change(<Gse GSE12472>, False, 0, None) Loading data for GSE16972, id = 1810 415.70 ms in get_probes(2) 4.47 s in load_gse( series_id platform_id..., 1810, False) 1.48 s in get_gene_fold_change(<Gse GSE16972>, False, 0, None) Loading data for GSE19407, id = 2430 640.41 ms in get_probes(4) 70.22 s in load_gse( series_id platform_id..., 2430, False) 10.60 s in get_gene_fold_change(<Gse GSE19407>, False, 0, None) Loading data for GSE20257, id = 2650 632.61 ms in get_probes(4) 73.93 s in load_gse( series_id platform_id..., 2650, False) 10.54 s in get_gene_fold_change(<Gse GSE20257>, False, 0, None) Loading data for GSE27536, id = 4511 628.66 ms in get_probes(4) 37.61 s in load_gse( series_id platform_id..., 4511, False) 5.30 s in get_gene_fold_change(<Gse GSE27536>, False, 0, None) Loading data for GSE27597, id = 4518 541.85 ms in get_probes(280) 15.73 s in load_gse( series_id platform_id..., 4518, False) 3.49 s in get_gene_fold_change(<Gse GSE27597>, False, 0, None) Loading data for GSE29133, id = 4897 660.30 ms in get_probes(4) 6.74 s in load_gse( series_id platform_id..., 4897, False) 2.33 s in get_gene_fold_change(<Gse GSE29133>, False, 0, None) Loading data for GSE30063, id = 5140 629.79 ms in get_probes(4) 54.94 s in load_gse( series_id platform_id..., 5140, False) skipping GPL570: sample ids mismatch 193.39 ms in get_gene_fold_change(<Gse GSE30063>, False, 0, None) Loading data for GSE37768, id = 6962
DOID:3083 chronic obstructive pulmonary disease Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE37768/GSE37768_series_matrix.txt.gz ... Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE37768/GSE37768-GPL570_series_matrix.txt.gz ... Failed loading matrix for serie 6962, platform 4
631.09 ms in get_probes(4) 2.21 s in load_gse( series_id platform_id..., 6962, False) skipping GPL570: sample ids mismatch 154.20 ms in get_gene_fold_change(<Gse GSE37768>, False, 0, None) Loading data for GSE47460, id = 9050
Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE47460/GSE47460_series_matrix.txt.gz ... Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE47460/GSE47460-GPL14550_series_matrix.txt.gz ... Cache to
522.57 ms in get_probes(1010)
data/geo_mirror/DATA/SeriesMatrix/GSE47460/GSE47460-GPL14550_series_matrix.txt.gz Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE47460/GSE47460_series_matrix.txt.gz ... Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE47460/GSE47460-GPL6480_series_matrix.txt.gz ... Cache to
508.03 ms in get_probes(53) 97.00 s in load_gse( series_id platform_id..., 9050, False) 21.30 s in get_gene_fold_change(<Gse GSE47460>, False, 0, None) Loading data for GSE5058, id = 9577 653.07 ms in get_probes(4) 21.41 s in load_gse( series_id platform_id..., 9577, False) 4.34 s in get_gene_fold_change(<Gse GSE5058>, False, 0, None) Loading data for GSE54837, id = 10256
data/geo_mirror/DATA/SeriesMatrix/GSE47460/GSE47460-GPL6480_series_matrix.txt.gz Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE54837/GSE54837_series_matrix.txt.gz ... Cache to
642.78 ms in get_probes(4) 144.53 s in load_gse( series_id platform_id..., 10256, False) 15.93 s in get_gene_fold_change(<Gse GSE54837>, False, 0, None) Loading data for GSE8545, id = 11509 639.79 ms in get_probes(4) 30.96 s in load_gse( series_id platform_id..., 11509, False) 4.14 s in get_gene_fold_change(<Gse GSE8545>, False, 0, None) Loading data for GSE8581, id = 11514
data/geo_mirror/DATA/SeriesMatrix/GSE54837/GSE54837_series_matrix.txt.gz Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE8581/GSE8581_series_matrix.txt.gz ... Cache to
640.51 ms in get_probes(4) 38.96 s in load_gse( series_id platform_id..., 11514, False) 4.06 s in get_gene_fold_change(<Gse GSE8581>, False, 0, None) Loading data for GSE27543, id = 11960
data/geo_mirror/DATA/SeriesMatrix/GSE8581/GSE8581_series_matrix.txt.gz Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE27543/GSE27543_series_matrix.txt.gz ... Cache to
255.21 ms in get_probes(80) 5.33 s in load_gse( series_id platform_id..., 11960, False) 857.31 ms in get_gene_fold_change(<Gse GSE27543>, False, 0, None) 862.71 s in Load/fold for DOID_3083 Meta-Analyzing DOID_3083 430.64 s in meta analysis of real data for DOID_3083 1.89 s in meta analysis of permutations for DOID_3083 133.99 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 433.13 s in Meta analysis for DOID_3083 DONE DOID_3083 analysis 1297.00 s in perform_analysis({'analysis_name': 'DOI...)
data/geo_mirror/DATA/SeriesMatrix/GSE27543/GSE27543_series_matrix.txt.gz 40
Started DOID_3310 analysis 1.11 s in get_analysis_df("eczema == 'eczema'", "eczema_control == 'ec..., '') 1.11 s in Loading dataframe for DOID_3310 Matching sources: 8 Excluded 2 sources as single-class Stats: 6 sources, 5 series, 5 platforms, 129 samples Loading data and calculating fold change for DOID_3310 Loading data for GSE12511, id = 664 625.27 ms in get_probes(367) 13.99 s in load_gse( series_id platform_id..., 664, False) 2.38 s in get_gene_fold_change(<Gse GSE12511>, False, 0, None) Loading data for GSE13709, id = 966 223.48 ms in get_probes(414) 239.09 ms in get_probes(415) 4.05 s in load_gse( series_id platform_id..., 966, False) 1.34 s in get_gene_fold_change(<Gse GSE13709>, False, 0, None) Loading data for GSE16161, id = 1619 656.46 ms in get_probes(4) 15.02 s in load_gse( series_id platform_id..., 1619, False) 3.03 s in get_gene_fold_change(<Gse GSE16161>, False, 0, None) Loading data for GSE26952, id = 4370 377.51 ms in get_probes(74) 5.22 s in load_gse( series_id platform_id..., 4370, False) 1.35 s in get_gene_fold_change(<Gse GSE26952>, False, 0, None) Loading data for GSE32924, id = 5815 628.66 ms in get_probes(4) 21.82 s in load_gse( series_id platform_id..., 5815, False) 3.09 s in get_gene_fold_change(<Gse GSE32924>, False, 0, None) 73.07 s in Load/fold for DOID_3310 Meta-Analyzing DOID_3310 400.80 s in meta analysis of real data for DOID_3310 458.33 ms in meta analysis of permutations for DOID_3310 133.99 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 401.87 s in Meta analysis for DOID_3310 DONE DOID_3310 analysis 476.25 s in perform_analysis({'analysis_name': 'DOI...)
DOID:3310 atopic dermatitis 41
Started DOID_3312 analysis 1.03 s in get_analysis_df("bipolar_disorder == '..., "bipolar_disorder_cont..., '') 1.04 s in Loading dataframe for DOID_3312 Matching sources: 15 Excluded 6 sources as single-class Stats: 9 sources, 9 series, 6 platforms, 438 samples Loading data and calculating fold change for DOID_3312 Loading data for GSE11767, id = 446 392.53 ms in get_probes(9) 3.94 s in load_gse( series_id platform_id..., 446, False) 1.30 s in get_gene_fold_change(<Gse GSE11767>, False, 0, None) Loading data for GSE23848, id = 3566 483.47 ms in get_probes(343) 19.54 s in load_gse( series_id platform_id..., 3566, False) 2.22 s in get_gene_fold_change(<Gse GSE23848>, False, 0, None) Loading data for GSE39653, id = 7363 711.53 ms in get_probes(674) 28.19 s in load_gse( series_id platform_id..., 7363, False) 2.97 s in get_gene_fold_change(<Gse GSE39653>, False, 0, None) Loading data for GSE46449, id = 8868 641.65 ms in get_probes(4) 59.45 s in load_gse( series_id platform_id..., 8868, False) 7.30 s in get_gene_fold_change(<Gse GSE46449>, False, 0, None) Loading data for GSE5389, id = 10094 394.35 ms in get_probes(2) 6.97 s in load_gse( series_id platform_id..., 10094, False) 1.82 s in get_gene_fold_change(<Gse GSE5389>, False, 0, None) Loading data for GSE5392, id = 10102 395.19 ms in get_probes(2) 22.29 s in load_gse( series_id platform_id..., 10102, False) 3.42 s in get_gene_fold_change(<Gse GSE5392>, False, 0, None) Loading data for GSE53987, id = 10110 629.34 ms in get_probes(4) 97.29 s in load_gse( series_id platform_id..., 10110, False) 8.70 s in get_gene_fold_change(<Gse GSE53987>, False, 0, None) Loading data for GSE7036, id = 11138 623.48 ms in get_probes(4) 7.56 s in load_gse( series_id platform_id..., 11138, False) 2.24 s in get_gene_fold_change(<Gse GSE7036>, False, 0, None) Loading data for GSE62191, id = 13125 708.76 ms in get_probes(10) 33.04 s in load_gse( series_id platform_id..., 13125, False) 4.11 s in get_gene_fold_change(<Gse GSE62191>, False, 0, None) 315.56 s in Load/fold for DOID_3312 Meta-Analyzing DOID_3312 433.85 s in meta analysis of real data for DOID_3312 923.38 ms in meta analysis of permutations for DOID_3312 125.89 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 435.38 s in Meta analysis for DOID_3312 DONE DOID_3312 analysis 752.19 s in perform_analysis({'analysis_name': 'DOI...)
DOID:3312 bipolar disorder 42
Started DOID_332 analysis 851.23 ms in get_analysis_df("ALS == 'ALS'", "ALS_control == 'ALS_c..., '') 855.41 ms in Loading dataframe for DOID_332 Matching sources: 11 Excluded 1 source as single-class Stats: 10 sources, 10 series, 7 platforms, 171 samples Loading data and calculating fold change for DOID_332 Loading data for GSE18920, id = 2315 4.71 s in get_probes(54) 111.90 s in load_gse( series_id platform_id..., 2315, False) 35.83 s in get_gene_fold_change(<Gse GSE18920>, False, 0, None) Loading data for GSE19332, id = 2413 632.54 ms in get_probes(4) 8.82 s in load_gse( series_id platform_id..., 2413, False) 2.45 s in get_gene_fold_change(<Gse GSE19332>, False, 0, None) Loading data for GSE26276, id = 4160 406.72 ms in get_probes(283) 6.01 s in load_gse( series_id platform_id..., 4160, False) 1.42 s in get_gene_fold_change(<Gse GSE26276>, False, 0, None) Loading data for GSE28253, id = 4659 672.36 ms in get_probes(10) 15.94 s in load_gse( series_id platform_id..., 4659, False) 2.47 s in get_gene_fold_change(<Gse GSE28253>, False, 0, None) Loading data for GSE33855, id = 6038 4.88 s in get_probes(54) 63.26 s in load_gse( series_id platform_id..., 6038, False) 21.54 s in get_gene_fold_change(<Gse GSE33855>, False, 0, None) Loading data for GSE40328, id = 7530 40.42 ms in get_probes(643) 984.98 ms in load_gse( series_id platform_id..., 7530, False) 508.12 ms in get_gene_fold_change(<Gse GSE40328>, False, 0, None) Loading data for GSE4595, id = 8780 659.16 ms in get_probes(26) 10.63 s in load_gse( series_id platform_id..., 8780, False) 2.34 s in get_gene_fold_change(<Gse GSE4595>, False, 0, None) Loading data for GSE56500, id = 10463 4.89 s in get_probes(54) 50.09 s in load_gse( series_id platform_id..., 10463, False) 18.34 s in get_gene_fold_change(<Gse GSE56500>, False, 0, None) Loading data for GSE56808, id = 10498 626.72 ms in get_probes(4) 12.26 s in load_gse( series_id platform_id..., 10498, False) 2.29 s in get_gene_fold_change(<Gse GSE56808>, False, 0, None) Loading data for GSE833, id = 11454 299.55 ms in get_probes(22) 2.16 s in load_gse( series_id platform_id..., 11454, False) 701.36 ms in get_gene_fold_change(<Gse GSE833>, False, 0, None) 377.61 s in Load/fold for DOID_332 Meta-Analyzing DOID_332 451.50 s in meta analysis of real data for DOID_332 5.83 s in meta analysis of permutations for DOID_332 145.91 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 457.96 s in Meta analysis for DOID_332 DONE DOID_332 analysis 836.62 s in perform_analysis({'analysis_name': 'DOI...)
DOID:332 amyotrophic lateral sclerosis 43
Started DOID_3393 analysis 1.53 s in get_analysis_df("CAD == 'CAD'", "CAD_control == 'CAD_c..., '') 1.53 s in Loading dataframe for DOID_3393 Matching sources: 8 Excluded 1 source as single-class Stats: 7 sources, 7 series, 6 platforms, 524 samples Loading data and calculating fold change for DOID_3393 Loading data for GSE10195, id = 57 663.67 ms in get_probes(26) 24.61 s in load_gse( series_id platform_id..., 57, False) 3.16 s in get_gene_fold_change(<Gse GSE10195>, False, 0, None) Loading data for GSE12288, id = 598 397.14 ms in get_probes(2) 42.26 s in load_gse( series_id platform_id..., 598, False) 7.97 s in get_gene_fold_change(<Gse GSE12288>, False, 0, None) Loading data for GSE18608, id = 2234 763.73 ms in get_probes(4) 8.59 s in load_gse( series_id platform_id..., 2234, False) 2.59 s in get_gene_fold_change(<Gse GSE18608>, False, 0, None) Loading data for GSE23561, id = 3492 584.42 ms in get_probes(780) 17.03 s in load_gse( series_id platform_id..., 3492, False) 2.25 s in get_gene_fold_change(<Gse GSE23561>, False, 0, None) Loading data for GSE42148, id = 7959 692.92 ms in get_probes(866) 17.94 s in load_gse( series_id platform_id..., 7959, False) 3.64 s in get_gene_fold_change(<Gse GSE42148>, False, 0, None) Loading data for GSE7638, id = 11305 391.15 ms in get_probes(9) 41.36 s in load_gse( series_id platform_id..., 11305, False) 6.02 s in get_gene_fold_change(<Gse GSE7638>, False, 0, None) Loading data for GSE974, id = 11812 386.98 ms in get_probes(2) 8.00 s in load_gse( series_id platform_id..., 11812, False) 2.12 s in get_gene_fold_change(<Gse GSE974>, False, 0, None) 190.06 s in Load/fold for DOID_3393 Meta-Analyzing DOID_3393 415.26 s in meta analysis of real data for DOID_3393 716.08 ms in meta analysis of permutations for DOID_3393 133.04 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 416.59 s in Meta analysis for DOID_3393 DONE DOID_3393 analysis 608.37 s in perform_analysis({'analysis_name': 'DOI...)
DOID:3393 coronary artery disease 44
Started DOID_418 analysis 997.25 ms in get_analysis_df("systemic_scleroderma ..., "systemic_scleroderma_..., '') 1.00 s in Loading dataframe for DOID_418 Matching sources: 10 Excluded 4 sources as single-class Excluded 2 sources by min samples Stats: 4 sources, 4 series, 3 platforms, 157 samples Loading data and calculating fold change for DOID_418 Loading data for GSE3886, id = 7181 107.55 ms in get_probes(1119) 6.61 s in load_gse( series_id platform_id..., 7181, False) 493.00 ms in get_gene_fold_change(<Gse GSE3886>, False, 0, None) Loading data for GSE4385, id = 8361 106.08 ms in get_probes(1119) 6.50 s in load_gse( series_id platform_id..., 8361, False) 417.23 ms in get_gene_fold_change(<Gse GSE4385>, False, 0, None) Loading data for GSE45536, id = 8688 623.45 ms in get_probes(4) 56.86 s in load_gse( series_id platform_id..., 8688, False) 9.42 s in get_gene_fold_change(<Gse GSE45536>, False, 0, None) Loading data for GSE63903, id = 13309 513.58 ms in get_probes(674) 10.49 s in load_gse( series_id platform_id..., 13309, False) 2.11 s in get_gene_fold_change(<Gse GSE63903>, False, 0, None) 94.24 s in Load/fold for DOID_418 Meta-Analyzing DOID_418 321.34 s in meta analysis of real data for DOID_418 248.30 ms in meta analysis of permutations for DOID_418 272.04 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 322.18 s in Meta analysis for DOID_418 DONE DOID_418 analysis 417.61 s in perform_analysis({'analysis_name': 'DOI...)
DOID:418 systemic scleroderma 45
Started DOID_4481 analysis 854.53 ms in get_analysis_df("allergic_rhinitis == ..., "allergic_rhinitis_con..., '') 858.97 ms in Loading dataframe for DOID_4481 Matching sources: 12 Stats: 12 sources, 11 series, 10 platforms, 352 samples Loading data and calculating fold change for DOID_4481 Loading data for GSE19187, id = 2377 415.71 ms in get_probes(283) 14.56 s in load_gse( series_id platform_id..., 2377, False) 2.27 s in get_gene_fold_change(<Gse GSE19187>, False, 0, None) Loading data for GSE1964, id = 2481 112.97 ms in get_probes(654) 2.30 s in load_gse( series_id platform_id..., 2481, False) 409.70 ms in get_gene_fold_change(<Gse GSE1964>, False, 0, None) Loading data for GSE37146, id = 6813 422.10 ms in get_probes(17) 13.64 s in load_gse( series_id platform_id..., 6813, False) 2.02 s in get_gene_fold_change(<Gse GSE37146>, False, 0, None) Loading data for GSE37155, id = 6815 510.50 ms in get_probes(674) 7.58 s in load_gse( series_id platform_id..., 6815, False) 1.87 s in get_gene_fold_change(<Gse GSE37155>, False, 0, None) Loading data for GSE44037, id = 8399 810.77 ms in get_probes(901) 21.03 s in load_gse( series_id platform_id..., 8399, False) 3.12 s in get_gene_fold_change(<Gse GSE44037>, False, 0, None) Loading data for GSE46171, id = 8818 701.67 ms in get_probes(1363) 651.74 ms in get_probes(53) 42.54 s in load_gse( series_id platform_id..., 8818, False) 3.91 s in get_gene_fold_change(<Gse GSE46171>, False, 0, None) Loading data for GSE50101, id = 9523 515.88 ms in get_probes(674) 22.78 s in load_gse( series_id platform_id..., 9523, False) 3.14 s in get_gene_fold_change(<Gse GSE50101>, False, 0, None) Loading data for GSE50223, id = 9538 479.59 ms in get_probes(416) 43.85 s in load_gse( series_id platform_id..., 9538, False) 4.76 s in get_gene_fold_change(<Gse GSE50223>, False, 0, None) Loading data for GSE51392, id = 9724 876.77 ms in get_probes(901) 38.75 s in load_gse( series_id platform_id..., 9724, False) 4.32 s in get_gene_fold_change(<Gse GSE51392>, False, 0, None) Loading data for GSE43523, id = 12101 427.12 ms in get_probes(331) 5.09 s in load_gse( series_id platform_id..., 12101, False) 1.58 s in get_gene_fold_change(<Gse GSE43523>, False, 0, None) Loading data for GSE54522, id = 12433 621.12 ms in get_probes(4) 33.04 s in load_gse( series_id platform_id..., 12433, False) 4.50 s in get_gene_fold_change(<Gse GSE54522>, False, 0, None) 281.15 s in Load/fold for DOID_4481 Meta-Analyzing DOID_4481 463.05 s in meta analysis of real data for DOID_4481 914.85 ms in meta analysis of permutations for DOID_4481 109.91 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 464.60 s in Meta analysis for DOID_4481 DONE DOID_4481 analysis 746.82 s in perform_analysis({'analysis_name': 'DOI...)
DOID:4481 allergic rhinitis 46
Started DOID_4606 analysis 883.26 ms in get_analysis_df("bile_duct_cancer == '..., "bile_duct_cancer_cont..., '') 887.41 ms in Loading dataframe for DOID_4606 Matching sources: 0 FAIL Can't perform meta-analysis on no data 950.47 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:4606 bile duct cancer 47
Started DOID_5419 analysis 896.83 ms in get_analysis_df("schizophrenia == 'sch..., "Psychiatric_Control =..., '') 901.10 ms in Loading dataframe for DOID_5419 Matching sources: 28 Excluded 4 sources as single-class Stats: 24 sources, 23 series, 13 platforms, 1486 samples Loading data and calculating fold change for DOID_5419 Loading data for GSE12649, id = 702 386.06 ms in get_probes(2) 24.31 s in load_gse( series_id platform_id..., 702, False) 2.83 s in get_gene_fold_change(<Gse GSE12649>, False, 0, None) Loading data for GSE12654, id = 704 289.12 ms in get_probes(7) 7.81 s in load_gse( series_id platform_id..., 704, False) 1.15 s in get_gene_fold_change(<Gse GSE12654>, False, 0, None) Loading data for GSE17612, id = 1980 629.49 ms in get_probes(4) 25.63 s in load_gse( series_id platform_id..., 1980, False) 4.76 s in get_gene_fold_change(<Gse GSE17612>, False, 0, None) Loading data for GSE18312, id = 2160 529.67 ms in get_probes(280) 8.04 s in load_gse( series_id platform_id..., 2160, False) 2.38 s in get_gene_fold_change(<Gse GSE18312>, False, 0, None) Loading data for GSE19112, id = 2359 40.91 ms in get_probes(643) 2.27 s in load_gse( series_id platform_id..., 2359, False) 334.33 ms in get_gene_fold_change(<Gse GSE19112>, False, 0, None) Loading data for GSE21138, id = 2862 782.95 ms in get_probes(4) 16.64 s in load_gse( series_id platform_id..., 2862, False) 4.81 s in get_gene_fold_change(<Gse GSE21138>, False, 0, None) Loading data for GSE21935, id = 3048 618.92 ms in get_probes(4) 29.96 s in load_gse( series_id platform_id..., 3048, False) 4.27 s in get_gene_fold_change(<Gse GSE21935>, False, 0, None) Loading data for GSE25673, id = 4035 404.89 ms in get_probes(283) 9.81 s in load_gse( series_id platform_id..., 4035, False) 1.95 s in get_gene_fold_change(<Gse GSE25673>, False, 0, None) Loading data for GSE27383, id = 4471 615.39 ms in get_probes(4) 46.80 s in load_gse( series_id platform_id..., 4471, False) 5.92 s in get_gene_fold_change(<Gse GSE27383>, False, 0, None) Loading data for GSE35974, id = 6545 405.95 ms in get_probes(283) 46.42 s in load_gse( series_id platform_id..., 6545, False) 3.92 s in get_gene_fold_change(<Gse GSE35974>, False, 0, None) Loading data for GSE35977, id = 6547 407.10 ms in get_probes(283) 54.20 s in load_gse( series_id platform_id..., 6547, False) 4.08 s in get_gene_fold_change(<Gse GSE35977>, False, 0, None) Loading data for GSE37981, id = 7007 686.90 ms in get_probes(67) 14.75 s in load_gse( series_id platform_id..., 7007, False) 3.05 s in get_gene_fold_change(<Gse GSE37981>, False, 0, None) Loading data for GSE38481, id = 7104 410.37 ms in get_probes(331) 11.16 s in load_gse( series_id platform_id..., 7104, False) 2.21 s in get_gene_fold_change(<Gse GSE38481>, False, 0, None) Loading data for GSE38484, id = 7105 480.04 ms in get_probes(389) 108.52 s in load_gse( series_id platform_id..., 7105, False) 8.23 s in get_gene_fold_change(<Gse GSE38484>, False, 0, None) Loading data for GSE38485, id = 7106 411.74 ms in get_probes(331) 645.29 ms in get_probes(389) 119.71 s in load_gse( series_id platform_id..., 7106, False) 10.31 s in get_gene_fold_change(<Gse GSE38485>, False, 0, None) Loading data for GSE46509, id = 8882 685.77 ms in get_probes(67) 13.58 s in load_gse( series_id platform_id..., 8882, False) 2.91 s in get_gene_fold_change(<Gse GSE46509>, False, 0, None) Loading data for GSE48072, id = 9177
DOID:5419 schizophrenia Loading URL ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SeriesMatrix/GSE48072/GSE48072_series_matrix.txt.gz ... Cache to
519.99 ms in get_probes(674) 5.68 s in load_gse( series_id platform_id..., 9177, False) 2.79 s in get_gene_fold_change(<Gse GSE48072>, False, 0, None) Loading data for GSE53987, id = 10110 632.76 ms in get_probes(4) 97.32 s in load_gse( series_id platform_id..., 10110, False) 7.77 s in get_gene_fold_change(<Gse GSE53987>, False, 0, None) Loading data for GSE27356, id = 11959 38.72 ms in get_probes(1703) 1.59 s in load_gse( series_id platform_id..., 11959, False) 259.60 ms in get_gene_fold_change(<Gse GSE27356>, False, 0, None) Loading data for GSE27601, id = 11963 38.98 ms in get_probes(1703) 1.38 s in load_gse( series_id platform_id..., 11963, False) 173.81 ms in get_gene_fold_change(<Gse GSE27601>, False, 0, None) Loading data for GSE62105, id = 13113 658.87 ms in get_probes(10) 9.42 s in load_gse( series_id platform_id..., 13113, False) 1.97 s in get_gene_fold_change(<Gse GSE62105>, False, 0, None) Loading data for GSE62191, id = 13125 656.88 ms in get_probes(10) 31.80 s in load_gse( series_id platform_id..., 13125, False) 3.92 s in get_gene_fold_change(<Gse GSE62191>, False, 0, None) Loading data for GSE62333, id = 13140 412.48 ms in get_probes(953) 16.61 s in load_gse( series_id platform_id..., 13140, False) 2.33 s in get_gene_fold_change(<Gse GSE62333>, False, 0, None) 795.01 s in Load/fold for DOID_5419 Meta-Analyzing DOID_5419 470.79 s in meta analysis of real data for DOID_5419 1.72 s in meta analysis of permutations for DOID_5419 107.05 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 473.12 s in Meta analysis for DOID_5419 DONE DOID_5419 analysis 1269.32 s in perform_analysis({'analysis_name': 'DOI...)
data/geo_mirror/DATA/SeriesMatrix/GSE48072/GSE48072_series_matrix.txt.gz 48
Started DOID_635 analysis 1.52 s in get_analysis_df("HIV == 'HIV' or HIV_S..., "HIV_control == 'HIV_c..., '') 1.53 s in Loading dataframe for DOID_635 Matching sources: 27 Excluded 3 sources as single-class Excluded 2 sources by min samples Stats: 22 sources, 22 series, 13 platforms, 1973 samples Loading data and calculating fold change for DOID_635 Loading data for GSE12597, id = 683 41.88 ms in get_probes(370) 275.58 ms in load_gse( series_id platform_id..., 683, False) 304.20 ms in get_gene_fold_change(<Gse GSE12597>, False, 0, None) Loading data for GSE14542, id = 1175 43.77 ms in get_probes(454) 6.33 s in load_gse( series_id platform_id..., 1175, False) 350.76 ms in get_gene_fold_change(<Gse GSE14542>, False, 0, None) Loading data for GSE16363, id = 1658 628.50 ms in get_probes(4) 25.98 s in load_gse( series_id platform_id..., 1658, False) 4.82 s in get_gene_fold_change(<Gse GSE16363>, False, 0, None) Loading data for GSE18233, id = 2140 487.55 ms in get_probes(416) 109.28 s in load_gse( series_id platform_id..., 2140, False) 8.96 s in get_gene_fold_change(<Gse GSE18233>, False, 0, None) Loading data for GSE19811, id = 2535 390.61 ms in get_probes(2) 5.61 s in load_gse( series_id platform_id..., 2535, False) 1.46 s in get_gene_fold_change(<Gse GSE19811>, False, 0, None) Loading data for GSE28177, id = 4638 623.44 ms in get_probes(4) 7.01 s in load_gse( series_id platform_id..., 4638, False) 2.18 s in get_gene_fold_change(<Gse GSE28177>, False, 0, None) Loading data for GSE28944, id = 4847 111.59 ms in get_probes(929) 453.37 ms in load_gse( series_id platform_id..., 4847, False) 353.63 ms in get_gene_fold_change(<Gse GSE28944>, False, 0, None) Loading data for GSE29536, id = 4997 428.85 ms in get_probes(17) 181.82 s in load_gse( series_id platform_id..., 4997, False) 6.11 s in get_gene_fold_change(<Gse GSE29536>, False, 0, None) Loading data for GSE29939, id = 5106 111.79 ms in get_probes(929) 776.25 ms in load_gse( series_id platform_id..., 5106, False) 437.36 ms in get_gene_fold_change(<Gse GSE29939>, False, 0, None) Loading data for GSE30310, id = 5201 191.56 ms in get_probes(616) 8.27 s in load_gse( series_id platform_id..., 5201, False) 1.16 s in get_gene_fold_change(<Gse GSE30310>, False, 0, None) Loading data for GSE33877, id = 6044 493.67 ms in get_probes(389) 8.24 s in load_gse( series_id platform_id..., 6044, False) 1.85 s in get_gene_fold_change(<Gse GSE33877>, False, 0, None) Loading data for GSE3489, id = 6268 291.86 ms in get_probes(7) 3.81 s in load_gse( series_id platform_id..., 6268, False) 1.17 s in get_gene_fold_change(<Gse GSE3489>, False, 0, None) Loading data for GSE35864, id = 6523 624.01 ms in get_probes(4) 47.44 s in load_gse( series_id platform_id..., 6523, False) 5.88 s in get_gene_fold_change(<Gse GSE35864>, False, 0, None) Loading data for GSE37250, id = 6847 515.67 ms in get_probes(674) 251.80 s in load_gse( series_id platform_id..., 6847, False) 25.40 s in get_gene_fold_change(<Gse GSE37250>, False, 0, None) Loading data for GSE39939, id = 7430 513.91 ms in get_probes(674) 74.90 s in load_gse( series_id platform_id..., 7430, False) 8.27 s in get_gene_fold_change(<Gse GSE39939>, False, 0, None) Loading data for GSE39940, id = 7431 522.92 ms in get_probes(674) 158.48 s in load_gse( series_id platform_id..., 7431, False) 15.82 s in get_gene_fold_change(<Gse GSE39940>, False, 0, None) Loading data for GSE4124, id = 7745 391.93 ms in get_probes(9) 8.47 s in load_gse( series_id platform_id..., 7745, False) 2.23 s in get_gene_fold_change(<Gse GSE4124>, False, 0, None) Loading data for GSE42058, id = 7937 669.49 ms in get_probes(4) 7.46 s in load_gse( series_id platform_id..., 7937, False) 2.28 s in get_gene_fold_change(<Gse GSE42058>, False, 0, None) Loading data for GSE511, id = 9682 218.15 ms in get_probes(22) 4.04 s in load_gse( series_id platform_id..., 9682, False) 805.11 ms in get_gene_fold_change(<Gse GSE511>, False, 0, None) Loading data for GSE52900, id = 9963 493.58 ms in get_probes(389) 11.16 s in load_gse( series_id platform_id..., 9963, False) 1.45 s in get_gene_fold_change(<Gse GSE52900>, False, 0, None) Loading data for GSE6740, id = 11026 391.92 ms in get_probes(2) 14.59 s in load_gse( series_id platform_id..., 11026, False) 2.17 s in get_gene_fold_change(<Gse GSE6740>, False, 0, None) Loading data for GSE9927, id = 11872 619.32 ms in get_probes(4) 12.15 s in load_gse( series_id platform_id..., 11872, False) 2.95 s in get_gene_fold_change(<Gse GSE9927>, False, 0, None) 1053.46 s in Load/fold for DOID_635 Meta-Analyzing DOID_635 468.17 s in meta analysis of real data for DOID_635 1.32 s in meta analysis of permutations for DOID_635 106.10 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 470.09 s in Meta analysis for DOID_635 DONE DOID_635 analysis 1525.38 s in perform_analysis({'analysis_name': 'DOI...)
DOID:635 acquired immunodeficiency syndrome 49
Started DOID_7147 analysis 1.03 s in get_analysis_df("ankylosing_spondyliti..., "ankylosing_spondyliti..., '') 1.03 s in Loading dataframe for DOID_7147 Matching sources: 3 Excluded 1 source by min samples Stats: 2 sources, 2 series, 2 platforms, 65 samples Loading data and calculating fold change for DOID_7147 Loading data for GSE11886, id = 479 638.99 ms in get_probes(4) 22.72 s in load_gse( series_id platform_id..., 479, False) 3.68 s in get_gene_fold_change(<Gse GSE11886>, False, 0, None) Loading data for GSE25101, id = 3902 513.57 ms in get_probes(389) 7.90 s in load_gse( series_id platform_id..., 3902, False) 2.11 s in get_gene_fold_change(<Gse GSE25101>, False, 0, None) 37.20 s in Load/fold for DOID_7147 Meta-Analyzing DOID_7147 207.42 s in meta analysis of real data for DOID_7147 200.72 ms in meta analysis of permutations for DOID_7147 106.10 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 208.24 s in Meta analysis for DOID_7147 DONE DOID_7147 analysis 246.64 s in perform_analysis({'analysis_name': 'DOI...)
DOID:7147 ankylosing spondylitis 50
Started DOID_7148 analysis 853.14 ms in get_analysis_df("RA == 'RA'", "RA_control == 'RA_con..., '') 857.36 ms in Loading dataframe for DOID_7148 Matching sources: 21 Excluded 1 source as single-class Excluded 2 sources by min samples Stats: 18 sources, 17 series, 13 platforms, 607 samples Loading data and calculating fold change for DOID_7148 Loading data for GSE10500, id = 137 289.59 ms in get_probes(7) 2.22 s in load_gse( series_id platform_id..., 137, False) 855.79 ms in get_gene_fold_change(<Gse GSE10500>, False, 0, None) Loading data for GSE11827, id = 457 38.24 ms in get_probes(36) 8.78 s in load_gse( series_id platform_id..., 457, False) 199.79 ms in get_gene_fold_change(<Gse GSE11827>, False, 0, None) Loading data for GSE12021, id = 517 380.47 ms in get_probes(2) 343.15 ms in get_probes(50) 14.78 s in load_gse( series_id platform_id..., 517, False) 2.69 s in get_gene_fold_change(<Gse GSE12021>, False, 0, None) Loading data for GSE13026, id = 799 37.97 ms in get_probes(36) 7.97 s in load_gse( series_id platform_id..., 799, False) 193.79 ms in get_gene_fold_change(<Gse GSE13026>, False, 0, None) Loading data for GSE15573, id = 1473 445.99 ms in get_probes(17) 17.80 s in load_gse( series_id platform_id..., 1473, False) 2.33 s in get_gene_fold_change(<Gse GSE15573>, False, 0, None) Loading data for GSE17755, id = 2014 326.36 ms in get_probes(51) 52.01 s in load_gse( series_id platform_id..., 2014, False) 3.89 s in get_gene_fold_change(<Gse GSE17755>, False, 0, None) Loading data for GSE1919, id = 2379 288.36 ms in get_probes(8) 2.67 s in load_gse( series_id platform_id..., 2379, False) 928.61 ms in get_gene_fold_change(<Gse GSE1919>, False, 0, None) Loading data for GSE2053, id = 2720 225.81 ms in get_probes(688) 2.36 s in load_gse( series_id platform_id..., 2720, False) 635.11 ms in get_gene_fold_change(<Gse GSE2053>, False, 0, None) Loading data for GSE21959, id = 3055 655.44 ms in get_probes(10) 17.50 s in load_gse( series_id platform_id..., 3055, False) 3.05 s in get_gene_fold_change(<Gse GSE21959>, False, 0, None) Loading data for GSE23561, id = 3492 558.63 ms in get_probes(780) 16.56 s in load_gse( series_id platform_id..., 3492, False) 2.10 s in get_gene_fold_change(<Gse GSE23561>, False, 0, None) Loading data for GSE29746, id = 5051 666.97 ms in get_probes(10) 15.31 s in load_gse( series_id platform_id..., 5051, False) 1.83 s in get_gene_fold_change(<Gse GSE29746>, False, 0, None) Loading data for GSE4588, id = 8761 622.37 ms in get_probes(4) 23.64 s in load_gse( series_id platform_id..., 8761, False) 3.66 s in get_gene_fold_change(<Gse GSE4588>, False, 0, None) Loading data for GSE49604, id = 9430 519.46 ms in get_probes(674) 9.56 s in load_gse( series_id platform_id..., 9430, False) 1.98 s in get_gene_fold_change(<Gse GSE49604>, False, 0, None) Loading data for GSE55235, id = 10308 392.68 ms in get_probes(2) 6.79 s in load_gse( series_id platform_id..., 10308, False) 1.63 s in get_gene_fold_change(<Gse GSE55235>, False, 0, None) Loading data for GSE55457, id = 10327 385.98 ms in get_probes(2) 7.25 s in load_gse( series_id platform_id..., 10327, False) 1.68 s in get_gene_fold_change(<Gse GSE55457>, False, 0, None) Loading data for GSE57383, id = 12627 643.29 ms in get_probes(901) 54.60 s in load_gse( series_id platform_id..., 12627, False) 4.34 s in get_gene_fold_change(<Gse GSE57383>, False, 0, None) Loading data for GSE57405, id = 12629 644.98 ms in get_probes(901) 53.72 s in load_gse( series_id platform_id..., 12629, False) 4.33 s in get_gene_fold_change(<Gse GSE57405>, False, 0, None) 355.39 s in Load/fold for DOID_7148 Meta-Analyzing DOID_7148 457.07 s in meta analysis of real data for DOID_7148 1.07 s in meta analysis of permutations for DOID_7148 99.90 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 458.75 s in Meta analysis for DOID_7148 DONE DOID_7148 analysis 815.24 s in perform_analysis({'analysis_name': 'DOI...)
DOID:7148 rheumatoid arthritis 51
Started DOID_7693 analysis 950.53 ms in get_analysis_df("AAA == 'AAA'", "AAA_control == 'AAA_c..., '') 954.72 ms in Loading dataframe for DOID_7693 Matching sources: 5 Excluded 1 source by min samples Stats: 4 sources, 4 series, 3 platforms, 104 samples Loading data and calculating fold change for DOID_7693 Loading data for GSE21803, id = 3020 76.31 ms in get_probes(724) 409.19 ms in load_gse( series_id platform_id..., 3020, False) 313.65 ms in get_gene_fold_change(<Gse GSE21803>, False, 0, None) Loading data for GSE47472, id = 9057 670.53 ms in get_probes(674) 12.07 s in load_gse( series_id platform_id..., 9057, False) 2.43 s in get_gene_fold_change(<Gse GSE47472>, False, 0, None) Loading data for GSE7084, id = 11146 378.98 ms in get_probes(39) 9.60 s in load_gse( series_id platform_id..., 11146, False) 1.43 s in get_gene_fold_change(<Gse GSE7084>, False, 0, None) Loading data for GSE57691, id = 12645 732.48 ms in get_probes(674) 31.18 s in load_gse( series_id platform_id..., 12645, False) 3.91 s in get_gene_fold_change(<Gse GSE57691>, False, 0, None) 62.60 s in Load/fold for DOID_7693 Meta-Analyzing DOID_7693 367.08 s in meta analysis of real data for DOID_7693 226.05 ms in meta analysis of permutations for DOID_7693 103.95 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 367.89 s in Meta analysis for DOID_7693 DONE DOID_7693 analysis 431.62 s in perform_analysis({'analysis_name': 'DOI...)
DOID:7693 abdominal aortic aneurysm 52
Started DOID_784 analysis 717.48 ms in get_analysis_df("CKD == 'CKD'", "CKD_Control == 'CKD_C..., '') 722.02 ms in Loading dataframe for DOID_784 Matching sources: 2 Excluded 1 source as single-class FAIL Can't perform meta-analysis on single source 857.18 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:784 chronic kidney failure 53
Started DOID_824 analysis 522.07 ms in get_analysis_df("periodontitis == 'per..., "periodontitis_control..., '') 526.46 ms in Loading dataframe for DOID_824 Matching sources: 3 Excluded 1 source by min samples Stats: 2 sources, 2 series, 2 platforms, 33 samples Loading data and calculating fold change for DOID_824 Loading data for GSE27993, id = 4587 404.76 ms in get_probes(283) 6.12 s in load_gse( series_id platform_id..., 4587, False) 1.47 s in get_gene_fold_change(<Gse GSE27993>, False, 0, None) Loading data for GSE43525, id = 8303 514.93 ms in get_probes(674) 15.08 s in load_gse( series_id platform_id..., 8303, False) 2.45 s in get_gene_fold_change(<Gse GSE43525>, False, 0, None) 25.61 s in Load/fold for DOID_824 Meta-Analyzing DOID_824 324.19 s in meta analysis of real data for DOID_824 152.86 ms in meta analysis of permutations for DOID_824 108.00 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 324.99 s in Meta analysis for DOID_824 DONE DOID_824 analysis 351.29 s in perform_analysis({'analysis_name': 'DOI...)
DOID:824 periodontitis 54
Started DOID_8577 analysis 779.32 ms in get_analysis_df("UC == 'UC'", "UC_control == 'UC_con..., '') 783.89 ms in Loading dataframe for DOID_8577 Matching sources: 18 Excluded 1 source as single-class Stats: 17 sources, 17 series, 12 platforms, 838 samples Loading data and calculating fold change for DOID_8577 Loading data for GSE10191, id = 56 402.45 ms in get_probes(25) 7.95 s in load_gse( series_id platform_id..., 56, False) 1.68 s in get_gene_fold_change(<Gse GSE10191>, False, 0, None) Loading data for GSE10616, id = 169 401.80 ms in get_probes(25) 16.80 s in load_gse( series_id platform_id..., 169, False) 1.71 s in get_gene_fold_change(<Gse GSE10616>, False, 0, None) Loading data for GSE11223, id = 317 637.65 ms in get_probes(26) 77.71 s in load_gse( series_id platform_id..., 317, False) 10.00 s in get_gene_fold_change(<Gse GSE11223>, False, 0, None) Loading data for GSE1710, id = 1852 360.75 ms in get_probes(18) 15.28 s in load_gse( series_id platform_id..., 1852, False) 1.41 s in get_gene_fold_change(<Gse GSE1710>, False, 0, None) Loading data for GSE22619, id = 3258 620.39 ms in get_probes(4) 11.61 s in load_gse( series_id platform_id..., 3258, False) 2.85 s in get_gene_fold_change(<Gse GSE22619>, False, 0, None) Loading data for GSE24287, id = 3687 499.01 ms in get_probes(53) 31.25 s in load_gse( series_id platform_id..., 3687, False) 3.46 s in get_gene_fold_change(<Gse GSE24287>, False, 0, None) Loading data for GSE2461, id = 3778 383.07 ms in get_probes(2) 2.80 s in load_gse( series_id platform_id..., 3778, False) 1.25 s in get_gene_fold_change(<Gse GSE2461>, False, 0, None) Loading data for GSE3365, id = 5991 385.28 ms in get_probes(2) 29.58 s in load_gse( series_id platform_id..., 5991, False) 2.92 s in get_gene_fold_change(<Gse GSE3365>, False, 0, None) Loading data for GSE36807, id = 6726 619.11 ms in get_probes(4) 24.55 s in load_gse( series_id platform_id..., 6726, False) 3.16 s in get_gene_fold_change(<Gse GSE36807>, False, 0, None) Loading data for GSE38713, id = 7147 611.67 ms in get_probes(4) 29.65 s in load_gse( series_id platform_id..., 7147, False) 4.28 s in get_gene_fold_change(<Gse GSE38713>, False, 0, None) Loading data for GSE6731, id = 11023 288.17 ms in get_probes(7) 5.00 s in load_gse( series_id platform_id..., 11023, False) 971.40 ms in get_gene_fold_change(<Gse GSE6731>, False, 0, None) Loading data for GSE9452, id = 11743 633.45 ms in get_probes(4) 14.23 s in load_gse( series_id platform_id..., 11743, False) 2.56 s in get_gene_fold_change(<Gse GSE9452>, False, 0, None) Loading data for GSE42911, id = 12095 635.22 ms in get_probes(1132) 10.62 s in load_gse( series_id platform_id..., 12095, False) 2.30 s in get_gene_fold_change(<Gse GSE42911>, False, 0, None) Loading data for GSE48634, id = 12194 524.40 ms in get_probes(674) 50.54 s in load_gse( series_id platform_id..., 12194, False) 6.66 s in get_gene_fold_change(<Gse GSE48634>, False, 0, None) Loading data for GSE53306, id = 12370 487.80 ms in get_probes(912) 13.12 s in load_gse( series_id platform_id..., 12370, False) 2.97 s in get_gene_fold_change(<Gse GSE53306>, False, 0, None) Loading data for GSE59071, id = 12790 404.84 ms in get_probes(283) 43.87 s in load_gse( series_id platform_id..., 12790, False) 4.36 s in get_gene_fold_change(<Gse GSE59071>, False, 0, None) Loading data for GSE65114, id = 13436 352.01 ms in get_probes(1338) 17.99 s in load_gse( series_id platform_id..., 13436, False) 1.66 s in get_gene_fold_change(<Gse GSE65114>, False, 0, None) 462.60 s in Load/fold for DOID_8577 Meta-Analyzing DOID_8577 457.34 s in meta analysis of real data for DOID_8577 1.31 s in meta analysis of permutations for DOID_8577 108.96 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 459.25 s in Meta analysis for DOID_8577 DONE DOID_8577 analysis 922.87 s in perform_analysis({'analysis_name': 'DOI...)
DOID:8577 ulcerative colitis 55
Started DOID_8778 analysis 1.14 s in get_analysis_df("CD == 'CD'", "CD_control == 'CD_con..., '') 1.14 s in Loading dataframe for DOID_8778 Matching sources: 20 Excluded 1 source as single-class Excluded 7 sources by min samples Stats: 12 sources, 12 series, 11 platforms, 743 samples Loading data and calculating fold change for DOID_8778 Loading data for GSE10616, id = 169 398.22 ms in get_probes(25) 17.10 s in load_gse( series_id platform_id..., 169, False) 2.46 s in get_gene_fold_change(<Gse GSE10616>, False, 0, None) Loading data for GSE1710, id = 1852 348.71 ms in get_probes(18) 15.16 s in load_gse( series_id platform_id..., 1852, False) 1.42 s in get_gene_fold_change(<Gse GSE1710>, False, 0, None) Loading data for GSE17594, id = 1976 632.79 ms in get_probes(10) 2.49 s in load_gse( series_id platform_id..., 1976, False) 2.12 s in get_gene_fold_change(<Gse GSE17594>, False, 0, None) Loading data for GSE20881, id = 2803 635.53 ms in get_probes(26) 61.36 s in load_gse( series_id platform_id..., 2803, False) 8.74 s in get_gene_fold_change(<Gse GSE20881>, False, 0, None) Loading data for GSE24287, id = 3687 504.27 ms in get_probes(53) 31.14 s in load_gse( series_id platform_id..., 3687, False) 4.27 s in get_gene_fold_change(<Gse GSE24287>, False, 0, None) Loading data for GSE3365, id = 5991 381.30 ms in get_probes(2) 29.52 s in load_gse( series_id platform_id..., 5991, False) 3.83 s in get_gene_fold_change(<Gse GSE3365>, False, 0, None) Loading data for GSE36807, id = 6726 612.43 ms in get_probes(4) 24.01 s in load_gse( series_id platform_id..., 6726, False) 2.98 s in get_gene_fold_change(<Gse GSE36807>, False, 0, None) Loading data for GSE52746, id = 9944 364.48 ms in get_probes(1438) 6.94 s in load_gse( series_id platform_id..., 9944, False) 1.99 s in get_gene_fold_change(<Gse GSE52746>, False, 0, None) Loading data for GSE60083, id = 10812 473.05 ms in get_probes(416) 12.47 s in load_gse( series_id platform_id..., 10812, False) 4.15 s in get_gene_fold_change(<Gse GSE60083>, False, 0, None) Loading data for GSE6731, id = 11023 287.74 ms in get_probes(7) 5.00 s in load_gse( series_id platform_id..., 11023, False) 1.02 s in get_gene_fold_change(<Gse GSE6731>, False, 0, None) Loading data for GSE9686, id = 11793 411.68 ms in get_probes(25) 10.53 s in load_gse( series_id platform_id..., 11793, False) 1.96 s in get_gene_fold_change(<Gse GSE9686>, False, 0, None) Loading data for GSE48634, id = 12194 527.24 ms in get_probes(674) 50.03 s in load_gse( series_id platform_id..., 12194, False) 4.81 s in get_gene_fold_change(<Gse GSE48634>, False, 0, None) 308.64 s in Load/fold for DOID_8778 Meta-Analyzing DOID_8778 411.59 s in meta analysis of real data for DOID_8778 834.50 ms in meta analysis of permutations for DOID_8778 123.02 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 413.03 s in Meta analysis for DOID_8778 DONE DOID_8778 analysis 723.06 s in perform_analysis({'analysis_name': 'DOI...)
DOID:8778 Crohn's disease 56
Started DOID_8893 analysis 955.27 ms in get_analysis_df("psoriasis == 'psorias..., "psoriasis_control == ..., '') 959.42 ms in Loading dataframe for DOID_8893 Matching sources: 11 Excluded 2 sources as single-class Excluded 1 source by min samples Stats: 8 sources, 8 series, 7 platforms, 429 samples Loading data and calculating fold change for DOID_8893 Loading data for GSE13355, id = 878 623.07 ms in get_probes(4) 94.43 s in load_gse( series_id platform_id..., 878, False) 7.56 s in get_gene_fold_change(<Gse GSE13355>, False, 0, None) Loading data for GSE32407, id = 5703 390.81 ms in get_probes(9) 14.97 s in load_gse( series_id platform_id..., 5703, False) 2.58 s in get_gene_fold_change(<Gse GSE32407>, False, 0, None) Loading data for GSE47598, id = 9087 597.05 ms in get_probes(674) 15.37 s in load_gse( series_id platform_id..., 9087, False) 2.52 s in get_gene_fold_change(<Gse GSE47598>, False, 0, None) Loading data for GSE57225, id = 10556 665.53 ms in get_probes(1010) 31.70 s in load_gse( series_id platform_id..., 10556, False) 3.01 s in get_gene_fold_change(<Gse GSE57225>, False, 0, None) Loading data for GSE57383, id = 12627 644.49 ms in get_probes(901) 54.00 s in load_gse( series_id platform_id..., 12627, False) 4.51 s in get_gene_fold_change(<Gse GSE57383>, False, 0, None) Loading data for GSE57405, id = 12629 647.41 ms in get_probes(901) 53.04 s in load_gse( series_id platform_id..., 12629, False) 4.10 s in get_gene_fold_change(<Gse GSE57405>, False, 0, None) Loading data for GSE61281, id = 12998 731.54 ms in get_probes(53) 27.77 s in load_gse( series_id platform_id..., 12998, False) 2.78 s in get_gene_fold_change(<Gse GSE61281>, False, 0, None) Loading data for GSE63741, id = 13298 42.53 ms in get_probes(1794) 2.58 s in load_gse( series_id platform_id..., 13298, False) 205.63 ms in get_gene_fold_change(<Gse GSE63741>, False, 0, None) 323.77 s in Load/fold for DOID_8893 Meta-Analyzing DOID_8893 443.27 s in meta analysis of real data for DOID_8893 638.21 ms in meta analysis of permutations for DOID_8893 106.81 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 444.53 s in Meta analysis for DOID_8893 DONE DOID_8893 analysis 769.45 s in perform_analysis({'analysis_name': 'DOI...)
DOID:8893 psoriasis 57
Started DOID_8986 analysis 726.99 ms in get_analysis_df("narcolepsy == 'narcol..., "narcolepsy_control ==..., '') 731.35 ms in Loading dataframe for DOID_8986 Matching sources: 1 FAIL Can't perform meta-analysis on single source 862.07 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:8986 narcolepsy 58
Started DOID_9008 analysis 668.21 ms in get_analysis_df("PsA == 'PsA'", "PsA_control == 'PsA_c..., '') 672.32 ms in Loading dataframe for DOID_9008 Matching sources: 3 Stats: 3 sources, 3 series, 2 platforms, 141 samples Loading data and calculating fold change for DOID_9008 Loading data for GSE57383, id = 12627 651.33 ms in get_probes(901) 54.14 s in load_gse( series_id platform_id..., 12627, False) 4.85 s in get_gene_fold_change(<Gse GSE57383>, False, 0, None) Loading data for GSE57405, id = 12629 651.99 ms in get_probes(901) 53.32 s in load_gse( series_id platform_id..., 12629, False) 4.81 s in get_gene_fold_change(<Gse GSE57405>, False, 0, None) Loading data for GSE61281, id = 12998 693.55 ms in get_probes(53) 26.74 s in load_gse( series_id platform_id..., 12998, False) 2.77 s in get_gene_fold_change(<Gse GSE61281>, False, 0, None) 147.75 s in Load/fold for DOID_9008 Meta-Analyzing DOID_9008 393.35 s in meta analysis of real data for DOID_9008 313.61 ms in meta analysis of permutations for DOID_9008 109.91 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 394.26 s in Meta analysis for DOID_9008 DONE DOID_9008 analysis 542.85 s in perform_analysis({'analysis_name': 'DOI...)
DOID:9008 psoriatic arthritis 59
Started DOID_9074 analysis 994.35 ms in get_analysis_df("SLE == 'SLE'", "SLE_control == 'SLE_c..., '') 998.59 ms in Loading dataframe for DOID_9074 Matching sources: 23 Excluded 3 sources as single-class Excluded 1 source by min samples Stats: 19 sources, 18 series, 12 platforms, 1375 samples Loading data and calculating fold change for DOID_9074 Loading data for GSE10325, id = 92 397.73 ms in get_probes(2) 12.88 s in load_gse( series_id platform_id..., 92, False) 2.92 s in get_gene_fold_change(<Gse GSE10325>, False, 0, None) Loading data for GSE11907, id = 488 387.36 ms in get_probes(2) 338.73 ms in get_probes(50) 94.71 s in load_gse( series_id platform_id..., 488, False) 6.01 s in get_gene_fold_change(<Gse GSE11907>, False, 0, None) Loading data for GSE12374, id = 618 326.56 ms in get_probes(51) 5.63 s in load_gse( series_id platform_id..., 618, False) 1.27 s in get_gene_fold_change(<Gse GSE12374>, False, 0, None) Loading data for GSE17755, id = 2014 324.90 ms in get_probes(51) 51.63 s in load_gse( series_id platform_id..., 2014, False) 2.25 s in get_gene_fold_change(<Gse GSE17755>, False, 0, None) Loading data for GSE20864, id = 2798 327.71 ms in get_probes(51) 15.96 s in load_gse( series_id platform_id..., 2798, False) 2.07 s in get_gene_fold_change(<Gse GSE20864>, False, 0, None) Loading data for GSE21649, id = 2983 346.13 ms in get_probes(720) 4.40 s in load_gse( series_id platform_id..., 2983, False) 1.17 s in get_gene_fold_change(<Gse GSE21649>, False, 0, None) Loading data for GSE22098, id = 3098 485.52 ms in get_probes(389) 135.92 s in load_gse( series_id platform_id..., 3098, False) 8.71 s in get_gene_fold_change(<Gse GSE22098>, False, 0, None) Loading data for GSE23203, id = 3404 351.27 ms in get_probes(774) 7.92 s in load_gse( series_id platform_id..., 3404, False) 1.65 s in get_gene_fold_change(<Gse GSE23203>, False, 0, None) Loading data for GSE27427, id = 4483 446.01 ms in get_probes(343) 21.41 s in load_gse( series_id platform_id..., 4483, False) 2.58 s in get_gene_fold_change(<Gse GSE27427>, False, 0, None) Loading data for GSE29536, id = 4997 416.49 ms in get_probes(17) 177.81 s in load_gse( series_id platform_id..., 4997, False) 7.72 s in get_gene_fold_change(<Gse GSE29536>, False, 0, None) Loading data for GSE30153, id = 5158 784.15 ms in get_probes(4) 12.35 s in load_gse( series_id platform_id..., 5158, False) 3.08 s in get_gene_fold_change(<Gse GSE30153>, False, 0, None) Loading data for GSE37356, id = 6873 508.06 ms in get_probes(674) 31.03 s in load_gse( series_id platform_id..., 6873, False) 4.46 s in get_gene_fold_change(<Gse GSE37356>, False, 0, None) Loading data for GSE4588, id = 8761 638.26 ms in get_probes(4) 23.10 s in load_gse( series_id platform_id..., 8761, False) 3.65 s in get_gene_fold_change(<Gse GSE4588>, False, 0, None) Loading data for GSE50395, id = 9551 681.78 ms in get_probes(10) 9.00 s in load_gse( series_id platform_id..., 9551, False) 1.78 s in get_gene_fold_change(<Gse GSE50395>, False, 0, None) Loading data for GSE50635, id = 9591 403.44 ms in get_probes(283) 17.18 s in load_gse( series_id platform_id..., 9591, False) 2.57 s in get_gene_fold_change(<Gse GSE50635>, False, 0, None) Loading data for GSE51997, id = 9826 623.68 ms in get_probes(4) 21.57 s in load_gse( series_id platform_id..., 9826, False) 3.91 s in get_gene_fold_change(<Gse GSE51997>, False, 0, None) Loading data for GSE8650, id = 11535 326.88 ms in get_probes(50) 22.49 s in load_gse( series_id platform_id..., 11535, False) 2.05 s in get_gene_fold_change(<Gse GSE8650>, False, 0, None) Loading data for GSE55447, id = 12480 669.90 ms in get_probes(674) 65.70 s in load_gse( series_id platform_id..., 12480, False) 7.39 s in get_gene_fold_change(<Gse GSE55447>, False, 0, None) 801.76 s in Load/fold for DOID_9074 Meta-Analyzing DOID_9074 469.04 s in meta analysis of real data for DOID_9074 1.28 s in meta analysis of permutations for DOID_9074 23.13 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 470.61 s in Meta analysis for DOID_9074 DONE DOID_9074 analysis 1273.63 s in perform_analysis({'analysis_name': 'DOI...)
DOID:9074 systemic lupus erythematosus 60
Started DOID_9206 analysis 1.01 s in get_analysis_df("BE_Tissue == 'BE_Tiss..., "EAC_Non_Tumor == 'EAC..., '') 1.01 s in Loading dataframe for DOID_9206 Matching sources: 16 Excluded 10 sources as single-class Excluded 2 sources by min samples Stats: 4 sources, 4 series, 3 platforms, 155 samples Loading data and calculating fold change for DOID_9206 Loading data for GSE34619, id = 6215 407.37 ms in get_probes(283) 9.69 s in load_gse( series_id platform_id..., 6215, False) 1.54 s in get_gene_fold_change(<Gse GSE34619>, False, 0, None) Loading data for GSE36223, id = 6608 406.23 ms in get_probes(9) 6.31 s in load_gse( series_id platform_id..., 6608, False) 2.12 s in get_gene_fold_change(<Gse GSE36223>, False, 0, None) Loading data for GSE39491, id = 7332 392.33 ms in get_probes(9) 26.65 s in load_gse( series_id platform_id..., 7332, False) 3.21 s in get_gene_fold_change(<Gse GSE39491>, False, 0, None) Loading data for GSE6059, id = 10854 75.98 ms in get_probes(1512) 8.63 s in load_gse( series_id platform_id..., 10854, False) 372.52 ms in get_gene_fold_change(<Gse GSE6059>, False, 0, None) 59.74 s in Load/fold for DOID_9206 Meta-Analyzing DOID_9206 246.52 s in meta analysis of real data for DOID_9206 184.46 ms in meta analysis of permutations for DOID_9206 165.94 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 247.31 s in Meta analysis for DOID_9206 DONE DOID_9206 analysis 308.24 s in perform_analysis({'analysis_name': 'DOI...)
DOID:9206 Barrett's esophagus 61
Started DOID_9296 analysis 661.29 ms in get_analysis_df("cleft_lip == 'cleft_l..., "cleft_lip_control == ..., '') 665.78 ms in Loading dataframe for DOID_9296 Matching sources: 1 FAIL Can't perform meta-analysis on single source 797.02 ms in perform_analysis({'analysis_name': 'DOI...)
DOID:9296 cleft lip 62
Started DOID_9352 analysis 733.37 ms in get_analysis_df("T2D == 'T2D'", "T2D_control == 'T2D_c..., '') 737.53 ms in Loading dataframe for DOID_9352 Matching sources: 36 Excluded 4 sources as single-class Excluded 1 source by min samples Stats: 31 sources, 25 series, 19 platforms, 854 samples Loading data and calculating fold change for DOID_9352 Loading data for GSE121, id = 539 208.38 ms in get_probes(338) 214.39 ms in get_probes(339) 208.06 ms in get_probes(22) 246.73 ms in get_probes(340) 199.74 ms in get_probes(341) 10.95 s in load_gse( series_id platform_id..., 539, False) 2.39 s in get_gene_fold_change(<Gse GSE121>, False, 0, None) Loading data for GSE12643, id = 697 281.04 ms in get_probes(7) 3.92 s in load_gse( series_id platform_id..., 697, False) 1.03 s in get_gene_fold_change(<Gse GSE12643>, False, 0, None) Loading data for GSE13015, id = 796 460.82 ms in get_probes(343) 480.53 ms in get_probes(389) 57.75 s in load_gse( series_id platform_id..., 796, False) 2.56 s in get_gene_fold_change(<Gse GSE13015>, False, 0, None) Loading data for GSE13760, id = 979 384.94 ms in get_probes(9) 6.80 s in load_gse( series_id platform_id..., 979, False) 1.69 s in get_gene_fold_change(<Gse GSE13760>, False, 0, None) Loading data for GSE15653, id = 1495 381.04 ms in get_probes(2) 5.29 s in load_gse( series_id platform_id..., 1495, False) 1.49 s in get_gene_fold_change(<Gse GSE15653>, False, 0, None) Loading data for GSE15790, id = 1522 340.33 ms in get_probes(511) 8.70 s in load_gse( series_id platform_id..., 1522, False) 1.82 s in get_gene_fold_change(<Gse GSE15790>, False, 0, None) Loading data for GSE16415, id = 1671 347.86 ms in get_probes(60) 6.69 s in load_gse( series_id platform_id..., 1671, False) 1.27 s in get_gene_fold_change(<Gse GSE16415>, False, 0, None) Loading data for GSE18732, id = 2269 38.28 ms in get_probes(628) 34.60 s in load_gse( series_id platform_id..., 2269, False) 262.89 ms in get_gene_fold_change(<Gse GSE18732>, False, 0, None) Loading data for GSE19420, id = 2433 616.83 ms in get_probes(4) 26.92 s in load_gse( series_id platform_id..., 2433, False) 3.92 s in get_gene_fold_change(<Gse GSE19420>, False, 0, None) Loading data for GSE20966, id = 2827 694.88 ms in get_probes(67) 14.18 s in load_gse( series_id platform_id..., 2827, False) 3.19 s in get_gene_fold_change(<Gse GSE20966>, False, 0, None) Loading data for GSE21340, id = 2908 213.47 ms in get_probes(22) 2.11 s in load_gse( series_id platform_id..., 2908, False) 657.35 ms in get_gene_fold_change(<Gse GSE21340>, False, 0, None) Loading data for GSE23561, id = 3492 560.53 ms in get_probes(780) 16.12 s in load_gse( series_id platform_id..., 3492, False) 2.15 s in get_gene_fold_change(<Gse GSE23561>, False, 0, None) Loading data for GSE25462, id = 3991 622.34 ms in get_probes(4) 24.99 s in load_gse( series_id platform_id..., 3991, False) 4.66 s in get_gene_fold_change(<Gse GSE25462>, False, 0, None) Loading data for GSE25724, id = 4042 386.42 ms in get_probes(2) 4.49 s in load_gse( series_id platform_id..., 4042, False) 1.46 s in get_gene_fold_change(<Gse GSE25724>, False, 0, None) Loading data for GSE26887, id = 4348 404.95 ms in get_probes(283) 8.31 s in load_gse( series_id platform_id..., 4348, False) 1.54 s in get_gene_fold_change(<Gse GSE26887>, False, 0, None) Loading data for GSE27949, id = 4577 620.70 ms in get_probes(4) 22.79 s in load_gse( series_id platform_id..., 4577, False) 3.14 s in get_gene_fold_change(<Gse GSE27949>, False, 0, None) Loading data for GSE29221, id = 4919 488.57 ms in get_probes(389) 14.63 s in load_gse( series_id platform_id..., 4919, False) 2.35 s in get_gene_fold_change(<Gse GSE29221>, False, 0, None) Loading data for GSE29226, id = 4921 510.62 ms in get_probes(389) 15.18 s in load_gse( series_id platform_id..., 4921, False) 2.38 s in get_gene_fold_change(<Gse GSE29226>, False, 0, None) Loading data for GSE29231, id = 4922 486.68 ms in get_probes(389) 14.96 s in load_gse( series_id platform_id..., 4922, False) 2.37 s in get_gene_fold_change(<Gse GSE29231>, False, 0, None) Loading data for GSE38396, id = 7091 622.50 ms in get_probes(4) 9.03 s in load_gse( series_id platform_id..., 7091, False) 2.26 s in get_gene_fold_change(<Gse GSE38396>, False, 0, None) Loading data for GSE38642, id = 7132 406.77 ms in get_probes(283) 9.89 s in load_gse( series_id platform_id..., 7132, False) 2.85 s in get_gene_fold_change(<Gse GSE38642>, False, 0, None) Loading data for GSE40234, id = 7508 634.00 ms in get_probes(53) 28.07 s in load_gse( series_id platform_id..., 7508, False) 3.90 s in get_gene_fold_change(<Gse GSE40234>, False, 0, None) Loading data for GSE50397, id = 9552 414.24 ms in get_probes(283) 24.14 s in load_gse( series_id platform_id..., 9552, False) 3.70 s in get_gene_fold_change(<Gse GSE50397>, False, 0, None) Loading data for GSE6798, id = 11053 620.37 ms in get_probes(4) 20.94 s in load_gse( series_id platform_id..., 11053, False) 3.54 s in get_gene_fold_change(<Gse GSE6798>, False, 0, None) Loading data for GSE9006, id = 11628 387.06 ms in get_probes(2) 334.37 ms in get_probes(50) 43.65 s in load_gse( series_id platform_id..., 11628, False) 3.51 s in get_gene_fold_change(<Gse GSE9006>, False, 0, None) 503.70 s in Load/fold for DOID_9352 Meta-Analyzing DOID_9352 476.91 s in meta analysis of real data for DOID_9352 1.93 s in meta analysis of permutations for DOID_9352 108.96 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 479.44 s in Meta analysis for DOID_9352 DONE DOID_9352 analysis 984.21 s in perform_analysis({'analysis_name': 'DOI...)
DOID:9352 type 2 diabetes mellitus 63
Started DOID_9744 analysis 1.27 s in get_analysis_df("T1D == 'T1D'", "T1D_control == 'T1D_c..., '') 1.28 s in Loading dataframe for DOID_9744 Matching sources: 13 Excluded 3 sources as single-class Stats: 10 sources, 8 series, 6 platforms, 416 samples Loading data and calculating fold change for DOID_9744 Loading data for GSE10586, id = 157 650.84 ms in get_probes(4) 17.91 s in load_gse( series_id platform_id..., 157, False) 3.43 s in get_gene_fold_change(<Gse GSE10586>, False, 0, None) Loading data for GSE11907, id = 488 387.05 ms in get_probes(2) 341.26 ms in get_probes(50) 95.77 s in load_gse( series_id platform_id..., 488, False) 2.51 s in get_gene_fold_change(<Gse GSE11907>, False, 0, None) Loading data for GSE14368, id = 1122 422.50 ms in get_probes(331) 5.16 s in load_gse( series_id platform_id..., 1122, False) 1.51 s in get_gene_fold_change(<Gse GSE14368>, False, 0, None) Loading data for GSE24147, id = 3647 619.02 ms in get_probes(4) 28.71 s in load_gse( series_id platform_id..., 3647, False) 4.19 s in get_gene_fold_change(<Gse GSE24147>, False, 0, None) Loading data for GSE29142, id = 4902 455.26 ms in get_probes(937) 11.17 s in load_gse( series_id platform_id..., 4902, False) 2.01 s in get_gene_fold_change(<Gse GSE29142>, False, 0, None) Loading data for GSE3447, id = 6176 114.41 ms in get_probes(654) 2.49 s in load_gse( series_id platform_id..., 6176, False) 379.35 ms in get_gene_fold_change(<Gse GSE3447>, False, 0, None) Loading data for GSE55098, id = 10293 616.36 ms in get_probes(4) 14.53 s in load_gse( series_id platform_id..., 10293, False) 3.07 s in get_gene_fold_change(<Gse GSE55098>, False, 0, None) Loading data for GSE9006, id = 11628 386.35 ms in get_probes(2) 333.29 ms in get_probes(50) 43.06 s in load_gse( series_id platform_id..., 11628, False) 6.98 s in get_gene_fold_change(<Gse GSE9006>, False, 0, None) 245.71 s in Load/fold for DOID_9744 Meta-Analyzing DOID_9744 413.09 s in meta analysis of real data for DOID_9744 665.44 ms in meta analysis of permutations for DOID_9744 109.91 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 414.34 s in Meta analysis for DOID_9744 DONE DOID_9744 analysis 661.53 s in perform_analysis({'analysis_name': 'DOI...)
DOID:9744 type 1 diabetes mellitus 64
Started DOID_986 analysis 812.39 ms in get_analysis_df("alopecia_areata == 'a..., "alopecia_areata_contr..., '') 816.68 ms in Loading dataframe for DOID_986 Matching sources: 2 Stats: 2 sources, 2 series, 1 platforms, 17 samples Loading data and calculating fold change for DOID_986 Loading data for GSE45512, id = 8684 628.17 ms in get_probes(4) 10.47 s in load_gse( series_id platform_id..., 8684, False) 2.43 s in get_gene_fold_change(<Gse GSE45512>, False, 0, None) Loading data for GSE58573, id = 10697 621.48 ms in get_probes(4) 8.49 s in load_gse( series_id platform_id..., 10697, False) 2.23 s in get_gene_fold_change(<Gse GSE58573>, False, 0, None) 24.13 s in Load/fold for DOID_986 Meta-Analyzing DOID_986 351.41 s in meta analysis of real data for DOID_986 238.83 ms in meta analysis of permutations for DOID_986 108.96 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper I..., Empty DataFrame Column...) 352.32 s in Meta analysis for DOID_986 DONE DOID_986 analysis 377.42 s in perform_analysis({'analysis_name': 'DOI...)
DOID:986 alopecia areata 65
Started DOID_9970 analysis 994.06 ms in get_analysis_df("obesity == 'obesity'", "obesity_control == 'o..., '') 998.34 ms in Loading dataframe for DOID_9970 Matching sources: 43 Excluded 23 sources as single-class Stats: 20 sources, 14 series, 16 platforms, 561 samples Loading data and calculating fold change for DOID_9970 Loading data for GSE12050, id = 521 666.94 ms in get_probes(332) 12.78 s in load_gse( series_id platform_id..., 521, False) 2.55 s in get_gene_fold_change(<Gse GSE12050>, False, 0, None) Loading data for GSE15524, id = 1461 343.06 ms in get_probes(500) 7.89 s in load_gse( series_id platform_id..., 1461, False) 1.59 s in get_gene_fold_change(<Gse GSE15524>, False, 0, None) Loading data for GSE2508, id = 3892 288.37 ms in get_probes(7) 290.41 ms in get_probes(8) 256.84 ms in get_probes(13) 220.59 ms in get_probes(14) 198.40 ms in get_probes(15) 246.18 ms in get_probes(16) 26.13 s in load_gse( series_id platform_id..., 3892, False) 4.95 s in get_gene_fold_change(<Gse GSE2508>, False, 0, None) Loading data for GSE2510, id = 3901 385.81 ms in get_probes(2) 332.64 ms in get_probes(50) 13.67 s in load_gse( series_id platform_id..., 3901, False) 3.10 s in get_gene_fold_change(<Gse GSE2510>, False, 0, None) Loading data for GSE25401, id = 3977 417.56 ms in get_probes(283) 16.91 s in load_gse( series_id platform_id..., 3977, False) 2.81 s in get_gene_fold_change(<Gse GSE25401>, False, 0, None) Loading data for GSE32575, id = 5751 428.92 ms in get_probes(17) 24.69 s in load_gse( series_id platform_id..., 5751, False) 2.81 s in get_gene_fold_change(<Gse GSE32575>, False, 0, None) Loading data for GSE44000, id = 8392 508.39 ms in get_probes(53) 5.55 s in load_gse( series_id platform_id..., 8392, False) 2.06 s in get_gene_fold_change(<Gse GSE44000>, False, 0, None) Loading data for GSE474, id = 9041 389.45 ms in get_probes(2) 7.29 s in load_gse( series_id platform_id..., 9041, False) 1.70 s in get_gene_fold_change(<Gse GSE474>, False, 0, None) Loading data for GSE48452, id = 9252 408.38 ms in get_probes(953) 29.44 s in load_gse( series_id platform_id..., 9252, False) 2.39 s in get_gene_fold_change(<Gse GSE48452>, False, 0, None) Loading data for GSE48521, id = 9261 619.21 ms in get_probes(4) 14.22 s in load_gse( series_id platform_id..., 9261, False) 2.74 s in get_gene_fold_change(<Gse GSE48521>, False, 0, None) Loading data for GSE48964, id = 9327 405.64 ms in get_probes(283) 5.02 s in load_gse( series_id platform_id..., 9327, False) 1.41 s in get_gene_fold_change(<Gse GSE48964>, False, 0, None) Loading data for GSE55205, id = 10304 511.66 ms in get_probes(674) 6.59 s in load_gse( series_id platform_id..., 10304, False) 2.30 s in get_gene_fold_change(<Gse GSE55205>, False, 0, None) Loading data for GSE60403, id = 10836 616.73 ms in get_probes(4) 13.90 s in load_gse( series_id platform_id..., 10836, False) 2.74 s in get_gene_fold_change(<Gse GSE60403>, False, 0, None) Loading data for GSE9624, id = 11780 617.37 ms in get_probes(4) 10.42 s in load_gse( series_id platform_id..., 11780, False) 2.05 s in get_gene_fold_change(<Gse GSE9624>, False, 0, None) 234.78 s in Load/fold for DOID_9970 Meta-Analyzing DOID_9970 456.90 s in meta analysis of real data for DOID_9970 1.30 s in meta analysis of permutations for DOID_9970 107.05 mks in get_balanced_permutations({'analysis_name': 'DOI..., C H H_lower H_upper \..., Empty DataFrame Column...) 458.79 s in Meta analysis for DOID_9970 DONE DOID_9970 analysis 694.83 s in perform_analysis({'analysis_name': 'DOI...)
DOID:9970 obesity
path = 'data/errors.csv'
if error_df.empty:
if os.path.exists(path):
os.remove(path)
else:
error_df = pandas.DataFrame(errors)
error_df = query_df.merge(error_df)
error_df.to_csv(path, index=False)
error_df