Important: The DGE pipeline is now deprecated and has been replaced by a DSL2 version, available at lconde-ucl/DGE2
Run DESeq2/GSEA on the featureCounts matrix or kallisto counts obtained from the nextflow_rnaseq pipeline
The pipeline is built using Nextflow. It is a basic pipeline for differential gene expression analysis that is meant to be run after the data has been preprocessed with the rnaseq pipeline
The nf-core/SGE pipeline comes with documentation about the pipeline, found in the docs/ directory:
