runPipelineConfig: Run the NGS analysis pipeline

Description Usage Arguments Details Value Author(s)

View source: R/runPipeline.R

Description

Run the NGS analysis pipeline from a configuration file

Usage

1
runPipelineConfig(config_filename, config_update)

Arguments

config_filename

Path to a pipeline configuration file

config_update

A list of name value pairs that will update the config parameters

Details

This is the launcher function for all pipeline runs. It will do some preprocessing steps, then aligns the reads, counts overlap with genomic Features such as genes, exons etc and applies a variant caller.

Value

Nothing

Author(s)

Jens Reeder, Gregoire Pau


HTSeqGenie documentation built on Nov. 2, 2018, 6:01 p.m.