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基于bwa，做一些优化，注释
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Heng Li 10721ca602 Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
bwt_gen Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
.gitignore Added a few others to .gitignore 2011-01-13 21:14:00 -05:00
COPYING Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
ChangeLog Update to the latest modfication 0.5.9rc1-2. Update ChangeLog 2011-01-13 20:54:10 -05:00
Makefile Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
NEWS Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
README Updated README 2011-01-13 21:38:37 -05:00
bamlite.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bamlite.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bntseq.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bntseq.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwa.1 Update to the latest modfication 0.5.9rc1-2. Update ChangeLog 2011-01-13 20:54:10 -05:00
bwape.c Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
bwase.c Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
bwase.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwaseqio.c Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
bwt.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwt.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwt_lite.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwt_lite.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtaln.c Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
bwtaln.h Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
bwtgap.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtgap.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtindex.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtio.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtmisc.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtsw2.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtsw2_aux.c Update to the latest modfication 0.5.9rc1-2. Update ChangeLog 2011-01-13 20:54:10 -05:00
bwtsw2_chain.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtsw2_core.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
bwtsw2_main.c Update to the latest modfication 0.5.9rc1-2. Update ChangeLog 2011-01-13 20:54:10 -05:00
cs2nt.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
is.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
khash.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
kseq.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
ksort.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
kstring.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
kstring.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
kvec.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
main.c Added an option to accept Illumina 1.3+ fastq 2011-01-15 14:07:08 -05:00
main.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
qualfa2fq.pl Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
simple_dp.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
solid2fastq.pl Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
stdaln.c Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
stdaln.h Imported from my local bwa repository, the master repository. 2011-01-13 20:52:12 -05:00
utils.c Update to the latest modfication 0.5.9rc1-2. Update ChangeLog 2011-01-13 20:54:10 -05:00
utils.h Update to the latest modfication 0.5.9rc1-2. Update ChangeLog 2011-01-13 20:54:10 -05:00

README 

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

Part of citations (via HubMed.org):

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