Hi, big fan of Pepkit, I'm currently using both peppy and pepr. I've come up against a challenge integrating pepr with snakemake. While trying to integrate an R script (that used pepr) into a snakemake pipeline, I can specify the conda environment used to encapsulate this rule. However since it doesn't appear that pepr is published in any conda accessible repos. (AFAICT), when snakemake tries to set up the environment, pepr cannot be installed. I think the solution to this would be adding pepr to bioconda or conda-forge.
Thanks for taking a look at this. Happy to attach/add any info if needed,
Parker