net.maizegenetics.pipeline

Enum TasselPipeline.FLAGS

Enclosing class:

TasselPipeline

public static enum TasselPipeline.FLAGS

Enum Constant Detail

t

net.maizegenetics.pipeline.TasselPipeline.FLAGS t

s

net.maizegenetics.pipeline.TasselPipeline.FLAGS s

k

net.maizegenetics.pipeline.TasselPipeline.FLAGS k

q

net.maizegenetics.pipeline.TasselPipeline.FLAGS q

h

net.maizegenetics.pipeline.TasselPipeline.FLAGS h

h5

net.maizegenetics.pipeline.TasselPipeline.FLAGS h5

hdf5Schema

net.maizegenetics.pipeline.TasselPipeline.FLAGS hdf5Schema

r

net.maizegenetics.pipeline.TasselPipeline.FLAGS r

plink

net.maizegenetics.pipeline.TasselPipeline.FLAGS plink

fasta

net.maizegenetics.pipeline.TasselPipeline.FLAGS fasta

table

net.maizegenetics.pipeline.TasselPipeline.FLAGS table

vcf

net.maizegenetics.pipeline.TasselPipeline.FLAGS vcf

readSerialAlignment

net.maizegenetics.pipeline.TasselPipeline.FLAGS readSerialAlignment

importGuess

net.maizegenetics.pipeline.TasselPipeline.FLAGS importGuess

projection

net.maizegenetics.pipeline.TasselPipeline.FLAGS projection

convertTOPMtoHDF5

net.maizegenetics.pipeline.TasselPipeline.FLAGS convertTOPMtoHDF5

retainRareAlleles

net.maizegenetics.pipeline.TasselPipeline.FLAGS retainRareAlleles

union

net.maizegenetics.pipeline.TasselPipeline.FLAGS union

intersect

net.maizegenetics.pipeline.TasselPipeline.FLAGS intersect

separate

net.maizegenetics.pipeline.TasselPipeline.FLAGS separate

homozygous

net.maizegenetics.pipeline.TasselPipeline.FLAGS homozygous

synonymizer

net.maizegenetics.pipeline.TasselPipeline.FLAGS synonymizer

mergeGenotypeTables

net.maizegenetics.pipeline.TasselPipeline.FLAGS mergeGenotypeTables

mergeAlignmentsSameSites

net.maizegenetics.pipeline.TasselPipeline.FLAGS mergeAlignmentsSameSites

excludeLastTrait

net.maizegenetics.pipeline.TasselPipeline.FLAGS excludeLastTrait

mlm

net.maizegenetics.pipeline.TasselPipeline.FLAGS mlm

glm

net.maizegenetics.pipeline.TasselPipeline.FLAGS glm

td_csv

net.maizegenetics.pipeline.TasselPipeline.FLAGS td_csv

td_tab

net.maizegenetics.pipeline.TasselPipeline.FLAGS td_tab

td_gui

net.maizegenetics.pipeline.TasselPipeline.FLAGS td_gui

diversity

net.maizegenetics.pipeline.TasselPipeline.FLAGS diversity

ld

net.maizegenetics.pipeline.TasselPipeline.FLAGS ld

ldd

net.maizegenetics.pipeline.TasselPipeline.FLAGS ldd

ck

net.maizegenetics.pipeline.TasselPipeline.FLAGS ck

tree

net.maizegenetics.pipeline.TasselPipeline.FLAGS tree

gs

net.maizegenetics.pipeline.TasselPipeline.FLAGS gs

distanceMatrix

net.maizegenetics.pipeline.TasselPipeline.FLAGS distanceMatrix

distMatrixRanges

net.maizegenetics.pipeline.TasselPipeline.FLAGS distMatrixRanges

genotypeSummary

net.maizegenetics.pipeline.TasselPipeline.FLAGS genotypeSummary

export

net.maizegenetics.pipeline.TasselPipeline.FLAGS export

filterAlign

net.maizegenetics.pipeline.TasselPipeline.FLAGS filterAlign

numericalGenoTransform

net.maizegenetics.pipeline.TasselPipeline.FLAGS numericalGenoTransform

includeTaxa

net.maizegenetics.pipeline.TasselPipeline.FLAGS includeTaxa

includeTaxaInFile

net.maizegenetics.pipeline.TasselPipeline.FLAGS includeTaxaInFile

excludeTaxa

net.maizegenetics.pipeline.TasselPipeline.FLAGS excludeTaxa

excludeTaxaInFile

net.maizegenetics.pipeline.TasselPipeline.FLAGS excludeTaxaInFile

includeSiteNames

net.maizegenetics.pipeline.TasselPipeline.FLAGS includeSiteNames

includeSiteNamesInFile

net.maizegenetics.pipeline.TasselPipeline.FLAGS includeSiteNamesInFile

excludeSiteNames

net.maizegenetics.pipeline.TasselPipeline.FLAGS excludeSiteNames

excludeSiteNamesInFile

net.maizegenetics.pipeline.TasselPipeline.FLAGS excludeSiteNamesInFile

subsetSites

net.maizegenetics.pipeline.TasselPipeline.FLAGS subsetSites

subsetTaxa

net.maizegenetics.pipeline.TasselPipeline.FLAGS subsetTaxa

newCoordinates

net.maizegenetics.pipeline.TasselPipeline.FLAGS newCoordinates

archaeopteryx

net.maizegenetics.pipeline.TasselPipeline.FLAGS archaeopteryx

filterTaxaNames

net.maizegenetics.pipeline.TasselPipeline.FLAGS filterTaxaNames

maxThreads

net.maizegenetics.pipeline.TasselPipeline.FLAGS maxThreads

mhd

net.maizegenetics.pipeline.TasselPipeline.FLAGS mhd

pca

net.maizegenetics.pipeline.TasselPipeline.FLAGS pca

printGenoSummary

net.maizegenetics.pipeline.TasselPipeline.FLAGS printGenoSummary

printMemoryUsage

net.maizegenetics.pipeline.TasselPipeline.FLAGS printMemoryUsage

Method Detail

toString

public java.lang.String toString()