SMK_ChIPseq

This workflow performs some genernal data process for ChIPseq

Workflow

Install Snakemake and Git

Please make sure that Snakemake and Git are correctly installed

Snakemake: https://snakemake.readthedocs.io/en/stable/getting_started/installation.html

Git: https://anaconda.org/anaconda/git

clone workflow into working directory

git clone https://github.com/mhu10/SMK_ChIPseq path/to/workdir

Edit config file and workfileas as needed

./SMK_ChIPseq/config/'config.yaml

./SMK_ChIPseq/Snakefile

Activate snakemake

conda activate snakemake

Dry run workflow

snakemake -n

Execute workflow

snakemake --use-conda --cores 12

Build DAG workflow chart

snakemake --rulegraph | dot -Tsvg > dag1.svg