Some of the snakemake arguments follow the key=value pattern. I would like to add them to the snakemake profile yaml file. for example, the command line argumen
Original question: As far as I understand the best practice for snakemake conda envs (see e.g., this answer and the comment by Johannes Köster), each rule
Using Snakemake, is there any way to access the path of a config file passed to the workflow using the --configfile flag? From poking around in the source for t
I work on an SGE cluster where some tools are available with conda : source activate unicycler-0.4.7 I can use conda on my snakemake workflow with yaml, but