Ongoing translation of zUMIs Single-Cell RNAseq pipeline into the Nextflow Framework.
Project Also Involves development of a Singularity container containing all dependencies for the pipeline to run.
Part of MSc Bioinformatics dissertation project.
Script can be run with the following command:
nextflow run main.nf
Nextflow parameters are set in nextflow.config file.
A docker container designed to be used for this script can be found at https://hub.docker.com/repository/docker/jamescraufurd/zumis-nf.
Credit to Parekh et al. 2018 for the original zUMIs pipeline. The pipeline can be found at their github repository.