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BenLangmead's
repositories
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.github
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doc
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example
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scripts
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third_party
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.gitignore
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.gitmodules
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.travis.yml
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AUTHORS
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BOWTIE2_VERSION
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CMakeLists.txt
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LICENSE
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MANUAL
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MANUAL.markdown
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Makefile
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NEWS
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README.md
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TUTORIAL
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aligner_bt.cpp
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aligner_bt.h
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aligner_cache.cpp
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aligner_cache.h
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aligner_driver.cpp
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aligner_driver.h
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aligner_metrics.h
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aligner_report.h
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aligner_result.cpp
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aligner_result.h
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aligner_seed.cpp
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aligner_seed.h
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aligner_seed2.cpp
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aligner_seed2.h
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aligner_seed_policy.cpp
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aligner_seed_policy.h
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aligner_sw.cpp
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aligner_sw.h
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aligner_sw_common.h
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aligner_sw_driver.cpp
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aligner_sw_driver.h
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aligner_sw_nuc.h
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aligner_swsse.cpp
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aligner_swsse.h
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aligner_swsse_ee_i16.cpp
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aligner_swsse_ee_u8.cpp
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aligner_swsse_loc_i16.cpp
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aligner_swsse_loc_u8.cpp
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aln_sink.cpp
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aln_sink.h
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alphabet.cpp
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alphabet.h
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assert_helpers.h
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banded.cpp
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banded.h
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binary_sa_search.h
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bitpack.h
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blockwise_sa.h
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bowtie2
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bowtie2-build
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bowtie2-inspect
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bowtie_build_main.cpp
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bowtie_main.cpp
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bt2_build.cpp
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bt2_dp.cpp
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bt2_idx.cpp
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bt2_idx.h
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bt2_inspect.cpp
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bt2_io.cpp
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bt2_locks.cpp
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bt2_locks.h
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bt2_search.cpp
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bt2_search.h
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bt2_util.cpp
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btypes.h
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ccnt_lut.cpp
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concurrentqueue.h
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cpu_numa_info.cpp
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cpu_numa_info.h
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diff_sample.cpp
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diff_sample.h
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dp_framer.cpp
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dp_framer.h
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ds.cpp
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ds.h
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edit.cpp
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edit.h
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endian_swap.h
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fast_mutex.h
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filebuf.h
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formats.h
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group_walk.cpp
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group_walk.h
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ival_list.cpp
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ival_list.h
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limit.cpp
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limit.h
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ls.cpp
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ls.h
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mask.cpp
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mask.h
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mem_ids.h
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mm.h
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multikey_qsort.cpp
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multikey_qsort.h
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opts.h
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outq.cpp
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outq.h
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pat.cpp
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pat.h
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pe.cpp
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pe.h
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presets.cpp
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presets.h
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processor_support.h
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qual.cpp
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qual.h
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random_source.cpp
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random_source.h
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random_util.cpp
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random_util.h
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read.h
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read_qseq.cpp
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ref_coord.cpp
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ref_coord.h
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ref_read.cpp
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ref_read.h
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reference.cpp
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reference.h
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sam.cpp
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sam.h
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scoring.cpp
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scoring.h
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search_globals.h
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sequence_io.h
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shmem.cpp
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shmem.h
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simple_func.cpp
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simple_func.h
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sse_util.cpp
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sse_util.h
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sse_wrap.h
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sstring.cpp
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sstring.h
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str_util.h
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threading.h
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threadpool.h
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timer.h
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tokenize.h
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unique.cpp
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unique.h
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util.h
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word_io.h
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zbox.h
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zstd_decompress.cpp
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zstd_decompress.h
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