- pairAlign - Variable in class uni.bielefeld.cmg.sparkhit.util.DefaultParam
-
- parallelization(int) - Method in class uni.bielefeld.cmg.sparkhit.pipeline.Pipelines
-
This method starts parallel processes with a selected number of cores.
- param - Variable in class uni.bielefeld.cmg.sparkhit.pipeline.OnePipe
-
- Parameter - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-recruiter.
- Parameter(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.Parameter
-
A constructor that construct an object of
Parameter class.
- ParameterForChisquareTester - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-chisquaretester.
- ParameterForChisquareTester(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForChisquareTester
-
A constructor that construct an object of
Parameter class.
- ParameterForCluster - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-cluster.
- ParameterForCluster(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForCluster
-
A constructor that construct an object of
Parameter class.
- ParameterForConverter - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-converter.
- ParameterForConverter(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForConverter
-
A constructor that construct an object of
Parameter class.
- ParameterForCorrelationer - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-correlationer.
- ParameterForCorrelationer(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForCorrelationer
-
A constructor that construct an object of
Parameter class.
- ParameterForDecompresser - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-decompresser.
- ParameterForDecompresser(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForDecompresser
-
A constructor that construct an object of
Parameter class.
- ParameterForMapper - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-mapper.
- ParameterForMapper(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForMapper
-
A constructor that construct an object of
Parameter class.
- ParameterForParallelizer - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-parallelizer.
- ParameterForParallelizer(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForParallelizer
-
A constructor that construct an object of
Parameter class.
- ParameterForReductioner - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-reductioner.
- ParameterForReductioner(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForReductioner
-
A constructor that construct an object of
Parameter class.
- ParameterForRegressioner - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-regressioner.
- ParameterForRegressioner(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForRegressioner
-
A constructor that construct an object of
Parameter class.
- ParameterForReporter - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-reporter.
- ParameterForReporter(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForReporter
-
A constructor that construct an object of
Parameter class.
- ParameterForScriptPiper - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-piper.
- ParameterForScriptPiper(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForScriptPiper
-
A constructor that construct an object of
Parameter class.
- ParameterForStatisticer - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-statisticer.
- ParameterForStatisticer(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForStatisticer
-
A constructor that construct an object of
Parameter class.
- ParameterForVariantCaller - Class in uni.bielefeld.cmg.sparkhit.util
-
Returns an object for parsing the input options for Sparkhit-variantcaller.
- ParameterForVariantCaller(String[]) - Constructor for class uni.bielefeld.cmg.sparkhit.util.ParameterForVariantCaller
-
A constructor that construct an object of
Parameter class.
- partitions - Variable in class uni.bielefeld.cmg.sparkhit.util.DefaultParam
-
- path - Variable in class uni.bielefeld.cmg.sparkhit.io.TextFileBufferOutput
-
- Pipeline - Interface in uni.bielefeld.cmg.sparkhit.pipeline
-
This is an interface for pipelines of each Sparkhit application.
- Pipelines - Class in uni.bielefeld.cmg.sparkhit.pipeline
-
Returns an object for managing different pipelines of each Sparkhit
application.
- Pipelines() - Constructor for class uni.bielefeld.cmg.sparkhit.pipeline.Pipelines
-
A constructor that construct an object of
Pipelines class.
- printConverterHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-converter
- printDecompresserHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-decompresser
- printHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-recruiter
- printMapperHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-mapper
- printParallelizerHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-parallelizer
- printReporterHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-reporter
- printScriptPiperHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-piper
- printStatisticerHelp() - Method in class uni.bielefeld.cmg.sparkhit.util.HelpParam
-
This method prints out help info for Sparkhit-statisticer
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.Parameter
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForChisquareTester
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForCluster
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForConverter
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForCorrelationer
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForDecompresser
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForMapper
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForParallelizer
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForReductioner
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForRegressioner
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForReporter
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForScriptPiper
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForStatisticer
-
This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.sparkhit.util.ParameterForVariantCaller
-
This method places all input parameters into a hashMap.