API for lvclark/polyRAD
Genotype Calling with Uncertainty from Sequencing Data in Polyploids and Diploids

Global functions
AddAlleleFreqByTaxa Man page Source code
AddAlleleFreqByTaxa.RADdata Man page Source code
AddAlleleFreqHWE Man page Source code
AddAlleleFreqHWE.RADdata Man page Source code
AddAlleleFreqMapping Man page Source code
AddAlleleFreqMapping.RADdata Man page Source code
AddGenotypeLikelihood Man page Source code
AddGenotypeLikelihood.RADdata Source code
AddGenotypePosteriorProb Man page Source code
AddGenotypePosteriorProb.RADdata Source code
AddGenotypePriorProb_ByTaxa Man page Source code
AddGenotypePriorProb_ByTaxa.RADdata Source code
AddGenotypePriorProb_HWE Man page Source code
AddGenotypePriorProb_HWE.RADdata Source code
AddGenotypePriorProb_Mapping2Parents Man page Source code
AddGenotypePriorProb_Mapping2Parents.RADdata Man page Source code
AddPCA Man page Source code
AddPCA.RADdata Man page Source code
AddPloidyChiSq Man page Source code
AddPloidyChiSq.RADdata Man page Source code
AddPloidyLikelihood Man page Source code
AddPloidyLikelihood.RADdata Man page Source code
AddPriorTimesLikelihood Man page Source code
AddPriorTimesLikelihood.RADdata Source code
CanDoGetWeightedMeanGeno Man page Source code
CanDoGetWeightedMeanGeno.RADdata Source code
CheckAllelesPerLocus Source code
ExportGAPIT Man page Source code
Export_TASSEL_Numeric Man page Source code
Export_rrBLUP_Amat Man page Source code
Export_rrBLUP_GWAS Man page Source code
GetAlleleNames Man page Source code
GetAlleleNames.RADdata Source code
GetBlankTaxa Man page Source code
GetBlankTaxa.RADdata Source code
GetContamRate Man page Source code
GetContamRate.RADdata Source code
GetDonorParent Man page Source code
GetDonorParent.RADdata Source code
GetLikelyGen Man page Source code
GetLikelyGen.RADdata Source code
GetLocDepth Man page Source code
GetLocDepth.RADdata Source code
GetLoci Man page Source code
GetLoci.RADdata Source code
GetRecurrentParent Man page Source code
GetRecurrentParent.RADdata Source code
GetTaxa Man page Source code
GetTaxa.RADdata Source code
GetWeightedMeanGenotypes Man page Source code
GetWeightedMeanGenotypes.RADdata Man page Source code
HWEpriors Source code
IterateHWE Man page Source code
IteratePopStruct Man page Source code
MakeTasselVcfFilter Man page Source code
OneAllelePerMarker Man page Source code
OneAllelePerMarker.RADdata Man page Source code
PipelineMapping2Parents Man page Source code
RADdata Man page Source code
SetBlankTaxa Man page Source code
SetBlankTaxa.RADdata Source code
SetContamRate Man page Source code
SetContamRate.RADdata Source code
SetDonorParent Man page Source code
SetDonorParent.RADdata Source code
SetRecurrentParent Man page Source code
SetRecurrentParent.RADdata Source code
SplitByChromosome Man page Source code
SplitByChromosome.RADdata Man page Source code
SubsetByLocus Man page Source code
SubsetByLocus.RADdata Man page Source code
SubsetByTaxon Man page Source code
SubsetByTaxon.RADdata Man page Source code
VCF2RADdata Man page Source code
alleleFreq Source code
consolidateSNPs Source code
exampleRAD Man page
exampleRAD_mapping Man page
nAlleles Man page Source code
nAlleles.RADdata Source code
nTaxa Man page Source code
nTaxa.RADdata Source code
ordered_gen_and_loctable Source code
print.RADdata Source code
priorTimesLikelihood Source code
readHMC Man page Source code
readStacks1 Man page Source code
readTagDigger Man page Source code
lvclark/polyRAD documentation built on Feb. 20, 2018, 1:15 p.m.