nf-core/rnaseq: downstream analysis in R

This document assumes you have processed your fastq sequence files in the NextFlow nf-core/rnaseq pipeline.

The nf-core/rnaseq pipeline completes quality control, read alignment and quantification and produces a count table as output. It does not complete differential expression or other downstream analysis.

The purpose of this document is as a guide for using the output data generated by nf-core/rnaseq to complete downstream analysis