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BenLangmead's
repositories
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SeqAn-1.1
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doc
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genomes
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indexes
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reads
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scripts
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third_party
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.gitignore
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AUTHORS
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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
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TUTORIAL
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VERSION
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aligner.h
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aligner_0mm.h
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aligner_1mm.h
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aligner_23mm.h
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aligner_metrics.h
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aligner_seed_mm.h
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alphabet.cpp
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alphabet.h
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annot.cpp
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annot.h
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assert_helpers.h
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auto_array.h
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binary_sa_search.h
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bitpack.h
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bitset.h
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blockwise_sa.h
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bowtie
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bowtie-build
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bowtie-inspect
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bowtie_build_main.cpp
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bowtie_inspect.cpp
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bowtie_main.cpp
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btypes.h
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ccnt_lut.cpp
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chaincat.cpp
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color.cpp
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color.h
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color_dec.cpp
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color_dec.h
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diff_sample.h
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ebwt.cpp
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ebwt.h
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ebwt_build.cpp
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ebwt_search.cpp
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ebwt_search.h
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ebwt_search_backtrack.h
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ebwt_search_util.cpp
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ebwt_search_util.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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hit.cpp
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hit.h
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hit_set.cpp
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hit_set.h
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log.cpp
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log.h
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mm.h
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multikey_qsort.h
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pat.cpp
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pat.h
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pool.h
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processor_support.h
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ptl.hpp
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qual.cpp
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qual.h
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random_source.h
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random_test.cpp
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range.h
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range_cache.h
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range_chaser.h
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range_source.h
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ref_aligner.cpp
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ref_aligner.h
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ref_read.cpp
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ref_read.h
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reference.h
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refmap.cpp
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refmap.h
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row_chaser.h
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sam.cpp
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sam.h
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search_1mm_phase1.c
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search_1mm_phase2.c
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search_23mm_phase1.c
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search_23mm_phase2.c
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search_23mm_phase3.c
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search_exact.c
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search_globals.h
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search_seeded_phase1.c
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search_seeded_phase2.c
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search_seeded_phase3.c
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search_seeded_phase4.c
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sequence_io.h
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shmem.cpp
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shmem.h
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str_util.h
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threading.h
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timer.h
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tinythread.cpp
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tinythread.h
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tkt.hpp
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tokenize.h
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word_io.h
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zbox.h
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