SimonSchafferer/CLIHelperPackage
A packages that manages easy access to cmdLine applications within R (related to RNA-Seq)

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Functions
106
Source code
26
Man pages
90
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SimonSchafferer/CLIHelperPackage: A packages that manages easy access to cmdLine applications within R (related to RNA-Seq)
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API

API for SimonSchafferer/CLIHelperPackage
A packages that manages easy access to cmdLine applications within R (related to RNA-Seq)

Global functions
BamToBed_CLI Man page
BamToBed_CLI-class Man page
Bowtie2TophatIon_CLI Man page
Bowtie2TophatIon_CLI-class Man page
Bowtie2_CLI Man page
Bowtie2_CLI-class Man page
Bowtie_CLI Man page
Bowtie_CLI-class Man page
CLIApplication-class Man page
CmdGenResult Man page
CmdGenResult-class Man page
CmdGenResultExec Man page
CmdGenResultExec-class Man page
Cutadapt_CLI Man page
Cutadapt_CLI-class Man page
FilesOutput Man page
FilesOutput-class Man page
FoldersOutput Man page
FoldersOutput-class Man page
Genomecov_CLI Man page
Genomecov_CLI-class Man page
HTSeqCount_CLI Man page
HTSeqCount_CLI-class Man page
IntersectBed_CLI Man page
IntersectBed_CLI-class Man page
MergeBedFile_CLI Man page
MergeBedFile_CLI-class Man page
MultiBamCov_CLI Man page
MultiBamCov_CLI-class Man page
MultiIntersectBed_CLI Man page
MultiIntersectBed_CLI-class Man page
MultiIntersectBed_perl_CLI Man page
MultiIntersectBed_perl_CLI-class Man page
OutResultReference Man page
OutResultReference-class Man page
RNAStar_CLI Man page
RNAStar_CLI-class Man page
Samtools_CLI Man page
Samtools_CLI-class Man page
SortFile_CLI Man page
SortFile_CLI-class Man page
Tophat2_CLI Man page
Tophat2_CLI-class Man page
executeCommandResult Man page
executeCommandResult,CmdGenResult-method Man page
generateCommandResult Man page
generateCommandResult,BamToBed_CLI-method Man page
generateCommandResult,Bowtie2TophatIon_CLI-method Man page
generateCommandResult,Bowtie2_CLI-method Man page
generateCommandResult,Bowtie_CLI-method Man page
generateCommandResult,Cutadapt_CLI-method Man page
generateCommandResult,Genomecov_CLI-method Man page
generateCommandResult,HTSeqCount_CLI-method Man page
generateCommandResult,IntersectBed_CLI-method Man page
generateCommandResult,MergeBedFile_CLI-method Man page
generateCommandResult,MultiBamCov_CLI-method Man page
generateCommandResult,MultiIntersectBed_CLI-method Man page
generateCommandResult,MultiIntersectBed_perl_CLI-method Man page
generateCommandResult,RNAStar_CLI-method Man page
generateCommandResult,Samtools_CLI-method Man page
generateCommandResult,SortFile_CLI-method Man page
generateCommandResult,Tophat2_CLI-method Man page
getAddNHTag Man page
getAddNHTag,Bowtie_CLI-method Man page
getAnnotationFileMB Man page
getAnnotationType Man page
getBowtieIndexFilePath Man page
getBowtieIndexFilePath,Bowtie_CLI-method Man page
getBowtieIndexFilePath,Tophat2_CLI-method Man page
getCLIApplication Man page
getCliParams Man page
getCmdGenResult Man page
getCommandLog Man page
getCommands Man page
getExecLog Man page
getExecLogFormatted Man page
getFilterConditions Man page
getFilterSam Man page
getGenomeIndexFilePath Man page
getGffFile Man page
getGroupVect Man page
getInFileBam Man page
getInFileNames Man page
getInFilePath Man page
getMatepairFileNames Man page
getMatepairFileNames,Bowtie_CLI-method Man page
getOutFileName Man page
getOutFileName,Genomecov_CLI-method Man page
getOutFileName,MultiIntersectBed_perl_CLI-method Man page
getOutFileNames Man page
getOutFilePath Man page
getOutResultName Man page
getOutResultReference Man page
getOutputFlag Man page
getOutputFormat Man page
getOutputFormat,BamToBed_CLI-method Man page
getOutputFormat,Bowtie_CLI-method Man page
getOutputFormat,RNAStar_CLI-method Man page
getOutputPipeString Man page
getPathToPicardTools Man page
getPerlPath Man page
getRequireStrandness Man page
getSamtoolsApplication Man page
getSortInFiles Man page
getStrandColumn Man page
getWithinGroupTH Man page
SimonSchafferer/CLIHelperPackage documentation built on May 9, 2019, 1:32 p.m.

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