rsemBw: Creating a bigwig using RSEM

Description Usage Arguments Value Examples

View source: R/rsemBw.R

Description

This function executes the docker container rsemstar where RSEM is installed and create a bigwig file for genomic data visualization

Usage

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rsemBw(group = c("sudo", "docker"), bam.folder = getwd(),
  scratch.folder = "/data/scratch")

Arguments

group,

a character string. Two options: "sudo" or "docker", depending to which group the user belongs

bam.folder,

a character string indicating where BAM SORTED file is located

scratch.folder,

a character string indicating the scratch folder where docker container will be mounted

Value

output.bw, which is the bigwig

Examples

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## Not run: 
    #downloading fastq files
    #running bwa
    rsemBw(group="docker",bam.folder=getwd(), scratch.folder="/data/scratch")



## End(Not run)

kendomaniac/docker4seq documentation built on Oct. 15, 2018, 7:17 p.m.