README.md

RNAja

About RNAja

RNAja is a pipeline written in snakemake, allowing to analyse RNAseq data, perform differential expression analysis using several mappers and counters. RNAja is the only pipeline able to compare method effects over DE genes.

1. Install dependencies and clone RNAja

Check dependencies for RNAja : Python < 3.12.0 and Snakemake >= 7.32.4

Here, you can install RNAja from the gitlab source code such as :

    git clone https://forge.ird.fr/phim/rnaja-pipeline.git
    cd rnaja-pipeline
    python3 -m pip install .
    # in edition mode (for developpers and debuging)
    #python3 -m pip install -e .

Don't forget to export RNAja into the $PATH environment path by