Libvcflib-Tools
- abba-baba(1) abba-baba
- bFst(1) bFst
- dumpContigsFromHeader(1) dumpContigsFromHeader
- genotypeSummary(1) genotypeSummary
- hapLrt(1) hapLrt
- iHS(1) iHS
- meltEHH(1) meltEHH
- normalize-iHS(1) normalize-iHS
- permuteGPAT++(1) permuteGPAT++
- permuteSmooth(1) permuteSmooth
- pFst(1) pFst
- plotHaps(1) plotHaps
- popStats(1) popStats
- pVst(1) pVst
- segmentFst(1) segmentFst
- segmentIhs(1) segmentIhs
- sequenceDiversity(1) sequenceDiversity
- smoother(1) smoother
- vcf2dag(1) vcf2dag
- vcf2fasta(1) vcf2fasta
- vcf2tsv(1) vcf2tsv
- vcfaddinfo(1) vcfaddinfo
- vcfafpath(1) vcfafpath
- vcfallelicprimitives(1) vcfallelicprimitives
- vcfaltcount(1) vcfaltcount
- vcfannotate(1) vcfannotate
- vcfannotategenotypes(1) vcfannotategenotypes
- vcfbreakmulti(1) vcfbreakmulti
- vcfcat(1) vcfcat
- vcfcheck(1) vcfcheck
- vcfclassify(1) vcfclassify
- vcfcleancomplex(1) vcfcleancomplex
- vcfcombine(1) vcfcombine
- vcfcommonsamples(1) vcfcommonsamples
- vcfcountalleles(1) vcfcountalleles
- vcfcreatemulti(1) vcfcreatemulti
- vcfdistance(1) vcfdistance
- vcfecho(1) vcfecho
- vcfentropy(1) vcfentropy
- vcfevenregions(1) vcfevenregions
- vcffilter(1) vcffilter
- vcffixup(1) vcffixup
- vcfflatten(1) vcfflatten
- vcfgeno2alleles(1) vcfgeno2alleles
- vcfgeno2haplo(1) vcfgeno2haplo
- vcfgenosamplenames(1) vcfgenosamplenames
- vcfgenosummarize(1) vcfgenosummarize
- vcfgenotypecompare(1) vcfgenotypecompare
- vcfgenotypes(1) vcfgenotypes
- vcfglbound(1) vcfglbound
- vcfglxgt(1) vcfglxgt
- vcfhetcount(1) vcfhetcount
- vcfhethomratio(1) vcfhethomratio
- vcfindex(1) vcfindex
- vcfinfo2qual(1) vcfinfo2qual
- vcfinfosummarize(1) vcfinfosummarize
- vcfintersect(1) vcfintersect
- vcfkeepgeno(1) vcfkeepgeno
- vcfkeepinfo(1) vcfkeepinfo
- vcfkeepsamples(1) vcfkeepsamples
- vcfld(1) vcfld
- vcfleftalign(1) vcfleftalign
- vcflength(1) vcflength
- vcflib(1) vcflib index
- vcfnulldotslashdot(1) vcfnulldotslashdot converts single dots to ./. This is useful for some downstream analysis tools.
- vcfnumalt(1) vcfnumalt
- vcfoverlay(1) vcfoverlay
- vcfparsealts(1) vcfparsealts
- vcfprimers(1) vcfprimers
- vcfqual2info(1) vcfqual2info
- vcfrandom(1) vcfrandom
- vcfrandomsample(1) vcfrandomsample
- vcfremap(1) vcfremap
- vcfremoveaberrantgenotypes(1) vcfremoveaberrantgenotypes
- vcfremovesamples(1) vcfremovesamples
- vcfroc(1) vcfroc
- vcfsample2info(1) vcfsample2info
- vcfsamplediff(1) vcfsamplediff
- vcfsamplenames(1) vcfsamplenames
- vcfsitesummarize(1) vcfsitesummarize
- vcfstats(1) vcfstats
- vcfstreamsort(1) vcfstreamsort
- vcfuniq(1) vcfuniq
- vcfuniqalleles(1) vcfuniqalleles
- wcFst(1) wcFst