CalculateDepth
cli
CalculateDepthArgs
cli
CommandGroup
cli
CountContigKmers
cli
CountContigKmersArgs
cli
CountReadKmers
cli
CountReadKmersArgs
cli
cache
TransformArgs
chooseAllele
AlleleCountHelper
cli
adam
coalesce
ADAM2FastaArgs
ADAM2VcfArgs
TransformArgs
Vcf2ADAMArgs
collapse
Reads2CoverageArgs
commandDescription
ADAM2Fasta
ADAM2Fastq
ADAM2Vcf
AlleleCount
CalculateDepth
CountContigKmers
CountReadKmers
Fasta2ADAM
FlagStat
Flatten
Fragments2Reads
ListDict
MergeShards
PrintADAM
Reads2Coverage
Reads2Fragments
Transform
TransformFeatures
Vcf2ADAM
VcfAnnotation2ADAM
View
WigFix2Bed
commandName
ADAM2Fasta
ADAM2Fastq
ADAM2Vcf
AlleleCount
CalculateDepth
CountContigKmers
CountReadKmers
Fasta2ADAM
FlagStat
Flatten
Fragments2Reads
ListDict
MergeShards
PrintADAM
Reads2Coverage
Reads2Fragments
Transform
TransformFeatures
Vcf2ADAM
VcfAnnotation2ADAM
View
WigFix2Bed
commands
CommandGroup
commit
About
companion
ADAM2Fasta
ADAM2Fastq
ADAM2Vcf
AlleleCount
CalculateDepth
CountContigKmers
CountReadKmers
Fasta2ADAM
FlagStat
Flatten
Fragments2Reads
ListDict
MergeShards
PrintADAM
Reads2Coverage
Reads2Fragments
Transform
TransformFeatures
Vcf2ADAM
VcfAnnotation2ADAM
View
WigFix2Bed
concatFilename
TransformArgs
configure
ADAMModule
countAlleles
AlleleCountHelper
cramEof
MergeShardsArgs
currentAnnotations
VcfAnnotation2ADAMArgs