cuffdiff: Calls cuffdiff on input bam file(s)

In HenrikBengtsson/aroma.seq: High-Throughput Sequence Analysis using the Aroma Framework

Description

Calls cuffdiff on input bam file(s).

Usage

## Default S3 method:
cuffdiff(transcriptsGtf, bams=NULL, optionsVec=NULL, ..., system2ArgsList=NULL,
  commandName="cuffdiff", verbose=FALSE)

Arguments

transcriptsGtf	Gtf file of transcripts ('gene model', e.g. from TopHat)
bams	Vector of pathnames (.sam or .bam)
optionsVec	Vector of named options
system2ArgsList	Named list of arguments to pass to internal system2 call.
...	...
verbose	See Verbose.
commandName	Name of executable

Author(s)

Taku Tokuyasu

HenrikBengtsson/aroma.seq documentation built on Feb. 15, 2021, 2:21 a.m.