CalculateDepth
cli
CalculateDepthArgs
cli
CommandGroup
cli
CountContigKmers
cli
CountContigKmersArgs
cli
CountReadKmers
cli
CountReadKmersArgs
cli
cartesian
CalculateDepthArgs
chooseAllele
AlleleCountHelper
cli
adam
coalesce
ADAM2VcfArgs TransformArgs Vcf2ADAMArgs
commandDescription
ADAM2Fasta ADAM2Vcf Adam2Fastq AlleleCount BuildInformation CalculateDepth CountContigKmers CountReadKmers Fasta2ADAM Features2ADAM FlagStat Flatten Fragments2Reads ListDict PluginExecutor PrintADAM PrintGenes PrintTags Reads2Fragments Transform Vcf2ADAM VcfAnnotation2ADAM View WigFix2Bed
commandName
ADAM2Fasta ADAM2Vcf Adam2Fastq AlleleCount BuildInformation CalculateDepth CountContigKmers CountReadKmers Fasta2ADAM Features2ADAM FlagStat Flatten Fragments2Reads ListDict PluginExecutor PrintADAM PrintGenes PrintTags Reads2Fragments Transform Vcf2ADAM VcfAnnotation2ADAM View WigFix2Bed
commands
CommandGroup
companion
ADAM2Fasta ADAM2Vcf Adam2Fastq AlleleCount BuildInformation CalculateDepth CountContigKmers CountReadKmers Fasta2ADAM Features2ADAM FlagStat Flatten Fragments2Reads ListDict PluginExecutor PrintADAM PrintGenes PrintTags Reads2Fragments Transform Vcf2ADAM VcfAnnotation2ADAM View WigFix2Bed
concatFilename
TransformArgs
configure
ADAMModule
count
PrintTagsArgs
countAlleles
AlleleCountHelper
currentAnnotations
VcfAnnotation2ADAMArgs