Man pages for pipeFrame
Pipeline framework for bioinformatics in R
| getObjsInPipe | Obtain all of objects in the specific pipeline |
| graphMng | Step graph management |
| ignoreCheck | ignore checking input and output file (for developer) |
| initPipeFrame | initialize the pipeFrame package |
| loadConfig | load configure from file |
| loadStep | load step object from rds file |
| runWithFinishCheck | Install dependent data or software with finishing check |
| setGenome | Configure genome for all steps |
| setJobName | Configure the job name for following steps. |
| setPipeName | Configure the pipe name for following steps. |
| setRefDir | Set the reference directory |
| setThreads | Configure the maximum number of threads |
| setTmpDir | Configure the directory for intermediate results of all steps |
| Step-class | Methods for Step objects |
| Utils | Functions for directory operations |
