RNA-Seq pipeline

The example below shows how put together a RNAseq pipeline with basic functionality. It maps a collection of read-pairs to a given reference genome and outputs the respective transcript model.

Try it in your computer

In order to run this pipeline in your computer you will required:

Install Nextflow entering the following command in the shell terminal:

$ curl -fsSL get.nextflow.io | bash

Then launch the pipeline execution using this command:

$ nextflow run rnatoy -with-docker 

It will automatically download the pipeline Github repository and the associated Docker images, thus the first execution can requires few minutes to complete depending you network connection.