DROP - Detection of RNA Outliers Pipeline¶
DROP is intended to help researchers use RNA-Seq data in order to detect genes with aberrant expression, aberrant splicing and mono-allelic expression. It consists of three independent modules for each of those strategies. After installing DROP, the user needs to fill in the config file and sample annotation table (Preparing the Input Data). Then, DROP can be executed in multiple ways (Pipeline Commands).
DROP is available on bioconda. We recommend using a dedicated conda environment. (installation time: ~ 10min)
conda install -c conda-forge -c bioconda drop
Test installation with demo project
mkdir ~/drop_demo cd ~/drop_demo drop demo
The pipeline can be run using snakemake commands
snakemake -n # dryrun snakemake --cores 1
Expected runtime: 25 min
For more information on different installation options, refer to Installation.