GitHub - GeoGenetics/bwa at 599e8407799ec603c3d36e9275cea959ede3a0bf

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Burrow-Wheeler Aligner for short-read alignment (optimized for aeDNA)

GPL-3.0 license

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Name		Name	Last commit message	Last commit date
Latest commit History 425 Commits
.gitignore		.gitignore
COPYING		COPYING
ChangeLog		ChangeLog
Makefile		Makefile
NEWS		NEWS
QSufSort.c		QSufSort.c
QSufSort.h		QSufSort.h
README		README
bamlite.c		bamlite.c
bamlite.h		bamlite.h
bntseq.c		bntseq.c
bntseq.h		bntseq.h
bwa.1		bwa.1
bwa.c		bwa.c
bwa.h		bwa.h
bwamem.c		bwamem.c
bwamem.h		bwamem.h
bwamem_pair.c		bwamem_pair.c
bwape.c		bwape.c
bwase.c		bwase.c
bwase.h		bwase.h
bwaseqio.c		bwaseqio.c
bwt.c		bwt.c
bwt.h		bwt.h
bwt_gen.c		bwt_gen.c
bwt_lite.c		bwt_lite.c
bwt_lite.h		bwt_lite.h
bwtaln.c		bwtaln.c
bwtaln.h		bwtaln.h
bwtgap.c		bwtgap.c
bwtgap.h		bwtgap.h
bwtindex.c		bwtindex.c
bwtsw2.h		bwtsw2.h
bwtsw2_aux.c		bwtsw2_aux.c
bwtsw2_chain.c		bwtsw2_chain.c
bwtsw2_core.c		bwtsw2_core.c
bwtsw2_main.c		bwtsw2_main.c
bwtsw2_pair.c		bwtsw2_pair.c
example.c		example.c
fastmap.c		fastmap.c
is.c		is.c
kbtree.h		kbtree.h
khash.h		khash.h
kopen.c		kopen.c
kseq.h		kseq.h
ksort.h		ksort.h
kstring.c		kstring.c
kstring.h		kstring.h
ksw.c		ksw.c
ksw.h		ksw.h
kvec.h		kvec.h
main.c		main.c
malloc_wrap.c		malloc_wrap.c
malloc_wrap.h		malloc_wrap.h
pemerge.c		pemerge.c
qualfa2fq.pl		qualfa2fq.pl
utils.c		utils.c
utils.h		utils.h
xa2multi.pl		xa2multi.pl

Repository files navigation

Released packages can be downloaded from SourceForge.net:

  http://sourceforge.net/projects/bio-bwa/files/

Introduction and FAQ are available at:

  http://bio-bwa.sourceforge.net

Manual page at:

  http://bio-bwa.sourceforge.net/bwa.shtml

Mailing list:

  bio-bwa-help@lists.sourceforge.net

To sign up:

  http://sourceforge.net/mail/?group_id=276243

Publications (Open Access):

  http://www.ncbi.nlm.nih.gov/pubmed/20080505
  http://www.ncbi.nlm.nih.gov/pubmed/19451168

Incomplete list of citations (via HubMed.org):

  http://www.hubmed.org/references.cgi?uids=20080505
  http://www.hubmed.org/references.cgi?uids=19451168

Related projects:

  http://pbwa.sourceforge.net/
  http://www.many-core.group.cam.ac.uk/projects/lam.shtml
  http://biodoop-seal.sourceforge.net/
  http://gitorious.org/bwa-cuda