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