runAnalysis: runAnalysis

In MPIIComputationalEpigenetics/epiRepeatR: epiRepeatR

Description

Run the epiRepeatR pipeline. This is the main function.

Usage

runAnalysis(anaDir, fileTable = NULL, resetToStep = NULL,
  submission = "system", cmdrArgs = list(), ...)

Arguments

anaDir	Analysis directory. epiRepeatR will manage this directory. If it is non-existing a new analysis will be launched if it is existing, epiRepeatR will try to resume the analysis
fileTable	Table containing file paths of the input files and annotation data. Will be ignored, when resuming an analysis.
resetToStep	If resuming an existing analysis or running from an existing analysis directory, reset the analysis to the beginning of the specified analysis step prior to running the pipeline
submission	Type of submission to be used. "system" (default) for system calls "sge" for Sun Grid Engine.
cmdrArgs	Named list of additional arguments for the construction of the CommandR object used for executing the pipeline.
...	arguments passed on to the submission run command

Value

nothing of particular interest

Author(s)

Fabian Mueller

MPIIComputationalEpigenetics/epiRepeatR documentation built on March 22, 2021, 11:09 p.m.