Github.com/chunjie-sam-liu/rmats-turbo-nf

rmats-turbo-nf

Portable rMATS-turbo nextflow pipeline for RNA-seq data.

Pull docker image from docker hub as singularity sif files

cd ${HOME}/sif
singularity pull docker://chunjiesamliu/rmats-turbo-nf:latest

Configure customised Nextflow config file

# ccle test data, test-ccle.config
params {
  projectName = "ccle_test"
  sras = "test-ccle-10.tsv"
  singleEnd = false
  readLength = 101
  ngcFile = false

  starIndex = "path/to/star/index"
  gtf = "path/to/gtf"

  outdir = 
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<small>This is a companion discussion topic for the original entry at <a href='https://dockstore.org/workflows/github.com/chunjie-sam-liu/rmats-turbo-nf'>github.com/chunjie-sam-liu/rmats-turbo-nf</a></small>