Snakemake workflow for preprocessing prior DEWseq

[tbrittoborges]

Dear Thomas @Distue and Sudeep @sudeepsahadevan,

I hope this finds you both well. I remember you used to provide a snakemake workflow to preprocess eClip data; please correct me if I'm wrong on this. Is that available anywhere? Do you recommend any alternatives?

[sudeepsahadevan]

Hi @tbrittoborges

Is this what you meant ? https://github.com/EMBL-Hentze-group/DEWSeq_analysis_helpers/tree/master/htseq-clip_snakemake

[tbrittoborges]

Hi Sudeep, Thanks for the prompt answer. I was referring to processing the reads (reads to alignments) workflow. Maybe I misremember it.