rsemBw: Creating a bigwig using RSEM

In kendomaniac/docker4seq: Running NGS computing demanding applications, e.g reads mapping and counting, wrapped in docker containers

Creating a bigwig using RSEM

Description

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

Usage

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

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



## End(Not run)

kendomaniac/docker4seq documentation built on Sept. 3, 2024, 6:42 p.m.