davidebolo1993/smk_sc_lr

Snakemake pipeline for single-cell long-read sequencing

Single-cell long-read sequenging using snakemake

This documentation - with additional info - will be hosted here at some point

Clone the repository

#clone
git clone --recursive https://github.com/davidebolo1993/smk_sc_lr
cd smk_sc_lr

Create a dedicated conda environment

Setting up

config/config.yaml and config/samples.tsv manually, then:

#print help
./workflow/scripts/prepare.sh

Running individual rules on slurm cluster