CalculateDepth
cli
CalculateDepthArgs
cli
CommandGroup
ADAMMain
CountContigKmers
cli
CountContigKmersArgs
cli
CountReadKmers
cli
CountReadKmersArgs
cli
cartesian
CalculateDepthArgs
chooseAllele
AlleleCountHelper
cli
adam
coalesce
ADAM2VcfArgs TransformArgs Vcf2ADAMArgs
commandDescription
ADAM2Vcf Adam2Fastq AlleleCount BuildInformation CalculateDepth CountContigKmers CountReadKmers Fasta2ADAM Features2ADAM FlagStat Flatten ListDict PluginExecutor PrintADAM PrintGenes PrintTags Transform Vcf2ADAM VcfAnnotation2ADAM View WigFix2Bed
commandName
ADAM2Vcf Adam2Fastq AlleleCount BuildInformation CalculateDepth CountContigKmers CountReadKmers Fasta2ADAM Features2ADAM FlagStat Flatten ListDict PluginExecutor PrintADAM PrintGenes PrintTags Transform Vcf2ADAM VcfAnnotation2ADAM View WigFix2Bed
commands
CommandGroup
companion
ADAM2Vcf Adam2Fastq AlleleCount BuildInformation CalculateDepth CountContigKmers CountReadKmers Fasta2ADAM Features2ADAM FlagStat Flatten ListDict PluginExecutor PrintADAM PrintGenes PrintTags Transform Vcf2ADAM VcfAnnotation2ADAM View WigFix2Bed
count
PrintTagsArgs
countAlleles
AlleleCountHelper
currentAnnotations
VcfAnnotation2ADAMArgs