- param - Variable in class uni.bielefeld.cmg.reflexiv.io.ContigReader
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- Parameter - Class in uni.bielefeld.cmg.reflexiv.util
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Returns an object for parsing the input options for Reflexiv run.
- Parameter(String[]) - Constructor for class uni.bielefeld.cmg.reflexiv.util.Parameter
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A constructor that construct an object of
Parameter class.
- ParameterOfCounter - Class in uni.bielefeld.cmg.reflexiv.util
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Returns an object for parsing the input options for Reflexiv counter.
- ParameterOfCounter(String[]) - Constructor for class uni.bielefeld.cmg.reflexiv.util.ParameterOfCounter
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A constructor that construct an object of
Parameter class.
- ParameterOfReAssembler - Class in uni.bielefeld.cmg.reflexiv.util
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Returns an object for parsing the input options for Sparkhit-recruiter.
- ParameterOfReAssembler(String[]) - Constructor for class uni.bielefeld.cmg.reflexiv.util.ParameterOfReAssembler
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- partitions - Variable in class uni.bielefeld.cmg.reflexiv.util.DefaultParam
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- path - Variable in class uni.bielefeld.cmg.reflexiv.io.TextFileBufferOutput
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- Pipeline - Interface in uni.bielefeld.cmg.reflexiv.pipeline
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This is an interface for pipelines of each Sparkhit application.
- Pipelines - Class in uni.bielefeld.cmg.reflexiv.pipeline
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Returns an object for managing different pipelines of each Sparkhit
application.
- Pipelines() - Constructor for class uni.bielefeld.cmg.reflexiv.pipeline.Pipelines
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A constructor that construct an object of
Pipelines class.
- primerArray - Variable in class uni.bielefeld.cmg.reflexiv.io.ContigReader
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- printHelp() - Method in class uni.bielefeld.cmg.reflexiv.util.HelpParam
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This method prints out help info for Reflexiv run
- printHelpOfCounter() - Method in class uni.bielefeld.cmg.reflexiv.util.HelpParam
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This method prints out help info for Reflexiv counter
- printHelpOfReAssembler() - Method in class uni.bielefeld.cmg.reflexiv.util.HelpParam
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This method prints out help info for Reflexiv reassembler
- putParameterID() - Method in class uni.bielefeld.cmg.reflexiv.util.Parameter
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This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.reflexiv.util.ParameterOfCounter
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This method places all input parameters into a hashMap.
- putParameterID() - Method in class uni.bielefeld.cmg.reflexiv.util.ParameterOfReAssembler
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