getSTARReference: Builds and gets a STAR reference

In uzh/ezRun: An R meta-package for the analysis of Next Generation Sequencing Data

Builds and gets a STAR reference

Description

Builds and gets a STAR reference by returning the file path to it.

Usage

getSTARReference(param)

Arguments

param

a list of parameters: ezRef@refIndex a character specifying the location of the index that is used in the alignment. ezRef@refFeatureFile a character specifying the file path to the annotation feature file (.gtf). ram an integer specifying how many gigabytes of RAM to use. ezRef@refFastaFile a character specifying the file path to the fasta file.

Value

Returns a character specifying the file path to the STAR indexed reference genome.

Author(s)

Rehrauer, Hubert

Schmid, Peter

Examples

ls = list('refBuild' = 'Schizosaccharomyces_pombe/Ensembl/EF2/Annotation/Version-2013-03-07')
param = ezParam(userParam = ls)
getSTARReference(param)

uzh/ezRun documentation built on Dec. 26, 2024, 9:53 a.m.