API for pipeFrame
Pipeline framework for bioinformatics in R
| Global functions | |
|---|---|
| $ | Man page |
| $,Step-method | Man page |
| $<- | Man page |
| $<-,Step-method | Man page |
| .onLoad | Source code |
| Step | Man page |
| Step-class | Man page |
| Utils | Man page |
| addEdges | Man page Source code |
| addFileSuffix | Man page Source code |
| argv | Man page |
| argv,Step-method | Man page |
| checkAllPath | Man page |
| checkAllPath,Step-method | Man page |
| checkAndInstall | Source code |
| checkAndInstallBSgenome | Man page Source code |
| checkAndInstallGenomeFa | Man page Source code |
| checkAndInstallOrgDb | Man page Source code |
| checkAndInstallTxDb | Man page Source code |
| checkFileCreatable | Man page Source code |
| checkFileExist | Man page Source code |
| checkPathExist | Man page Source code |
| checkRelation | Source code |
| checkRequireParam | Man page |
| checkRequireParam,Step-method | Man page |
| clearStepCache | Man page |
| clearStepCache,Step-method | Man page |
| configRegName | Man page Source code |
| genReport | Man page |
| getAttachedStep | Man page Source code |
| getAutoPath | Man page |
| getAutoPath,Step-method | Man page |
| getBasenamePrefix | Man page Source code |
| getCheckAndInstallFunc | Source code |
| getGenome | Man page Source code |
| getGraphObj | Source code |
| getJobDir | Man page Source code |
| getJobName | Man page Source code |
| getNextSteps | Man page Source code |
| getObjsInPipe | Man page Source code |
| getParam | Man page |
| getParam,Step-method | Man page |
| getParamItems | Man page |
| getParamItems,Step-method | Man page |
| getParamMD5Path | Man page |
| getParamMD5Path,Step-method | Man page |
| getPathPrefix | Man page Source code |
| getPipeName | Man page Source code |
| getPrevSteps | Man page Source code |
| getRef | Man page Source code |
| getRefDir | Man page Source code |
| getRefFiles | Man page Source code |
| getRefRc | Man page Source code |
| getStepWorkDir | Man page |
| getStepWorkDir,Step-method | Man page |
| getThreads | Man page Source code |
| getTmpDir | Man page Source code |
| getValidGenome | Man page Source code |
| graphMng | Man page |
| ignoreCheck | Man page Source code |
| init | Man page |
| init,Step-method | Man page |
| initPipeFrame | Man page Source code |
| input | Man page |
| input,Step-method | Man page |
| input<- | Man page |
| input<-,Step-method | Man page |
| isReady | Man page |
| isReady,Step-method | Man page |
| loadConfig | Man page Source code |
| loadStep | Man page Source code |
| msgBoxBegin | Source code |
| msgBoxDone | Source code |
| output | Man page |
| output,Step-method | Man page |
| output<- | Man page |
| output<-,Step-method | Man page |
| param | Man page |
| param,Step-method | Man page |
| param<- | Man page |
| param<-,Step-method | Man page |
| pipeName | Man page |
| pipeName,Step-method | Man page |
| printMap | Man page Source code |
| processing | Man page |
| property | Man page |
| property,Step-method | Man page |
| property<- | Man page |
| property<-,Step-method | Man page |
| regAttachedStep | Man page Source code |
| report | Man page |
| report,Step-method | Man page |
| report<- | Man page |
| report<-,Step-method | Man page |
| runWithFinishCheck | Man page Source code |
| saveConfig | Man page Source code |
| setGenome | Man page Source code |
| setJobName | Man page Source code |
| setPipeName | Man page Source code |
| setRefDir | Man page Source code |
| setThreads | Man page Source code |
| setTmpDir | Man page Source code |
| stepID | Man page |
| stepID,Step-method | Man page |
| stepName | Man page |
| stepName,Step-method | Man page |
| stepType | Man page |
| stepType,Step-method | Man page |
| writeLog | Man page |
| writeLog,Step-method | Man page |
