GitHub - nieder/bcftools: This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

This is the official development repository for BCFtools. It contains all the vcf* commands which previously lived in the htslib repository (such as vcfcheck, vcfmerge, vcfisec, etc.) and the samtools BCF calling from bcftools subdirectory of samtools.

For a full documentation, see bcftools GitHub page.

Name		Name	Last commit message	Last commit date
Latest commit History 1,676 Commits
.travis		.travis
doc		doc
m4		m4
misc		misc
plugins		plugins
test		test
.gitattributes		.gitattributes
.gitignore		.gitignore
.travis.yml		.travis.yml
AUTHORS		AUTHORS
HMM.c		HMM.c
HMM.h		HMM.h
INSTALL		INSTALL
LICENSE		LICENSE
Makefile		Makefile
NEWS		NEWS
README		README
README.md		README.md
bam2bcf.c		bam2bcf.c
bam2bcf.h		bam2bcf.h
bam2bcf_indel.c		bam2bcf_indel.c
bam_sample.c		bam_sample.c
bam_sample.h		bam_sample.h
bcftools.h		bcftools.h
bin.c		bin.c
< 10000 a title="bin.h" aria-label="bin.h, (File)" class="Link--primary" href="/nieder/bcftools/blob/develop/bin.h">bin.h		bin.h
call.h		call.h
ccall.c		ccall.c
config.mk.in		config.mk.in
configure.ac		configure.ac
consensus.c		consensus.c
convert.c		convert.c
convert.h		convert.h
csq.c		csq.c
em.c		em.c
filter.c		filter.c
filter.h		filter.h
gvcf.c		gvcf.c
gvcf.h		gvcf.h
hclust.c		hclust.c
hclust.h		hclust.h
install-sh		install-sh
khash_str2str.h		khash_str2str.h
kheap.h		kheap.h
kmin.c		kmin.c
kmin.h		kmin.h
main.c		main.c
mcall.c		mcall.c
mpileup.c		mpileup.c
mw.h		mw.h
peakfit.c		peakfit.c
peakfit.h		peakfit.h
ploidy.c		ploidy.c
ploidy.h		ploidy.h
polysomy.c		polysomy.c
prob1.c		prob1.c
prob1.h		prob1.h
rbuf.h		rbuf.h
regidx.c		regidx.c
regidx.h		regidx.h
reheader.c		reheader.c
smpl_ilist.c		smpl_ilist.c
smpl_ilist.h		smpl_ilist.h
tabix.c		tabix.c
tsv2vcf.c		tsv2vcf.c
tsv2vcf.h		tsv2vcf.h
vcfannotate.c		vcfannotate.c
vcfbuf.c		vcfbuf.c
vcfbuf.h		vcfbuf.h
vcfcall.c		vcfcall.c
vcfcnv.c		vcfcnv.c
vcfconcat.c		vcfconcat.c
vcfconvert.c		vcfconvert.c
vcffilter.c		vcffilter.c
vcfgtcheck.c		vcfgtcheck.c
vcfindex.c		vcfindex.c
vcfisec.c		vcfisec.c
vcfmerge.c		vcfmerge.c
vcfnorm.c		vcfnorm.c
vcfplugin.c		vcfplugin.c
vcfquery.c		vcfquery.c
vcfroh.c		vcfroh.c
vcfsom.c		vcfsom.c
vcfsort.c		vcfsort.c
vcfstats.c		vcfstats.c
vcfview.c		vcfview.c
vcmp.c		vcmp.c
vcmp.h		vcmp.h
version.c		version.c

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