Snakemake

A snakemake pipeline to split scATACseq bam by cluster, make bigwig tracks, call peaks and recount

ATACseq contamination of mycoplasma DNA

In the end of last year, I wrote a post summarizing the passing 2016. Now, it is time to write the same for 2017! How time flies!

I am currently experimenting snakemake for pipelines. We will have paired samples when processing data. e.g. ChIP-seq (IP vs Input), DNA-seq (Normal vs…

Snakemake is a python3 based pipeline building tool (a python variant of GNU make) specialized for bioinformatics. I put my notes managing different…

Snakemake pipelines for processing high-throughput sequencing data