Add IDs to the rules so the rule orders are easier to understand, i.e. 00_helper_functions.smk, 01_prepare_fastqs.smk, etc.
Also, within the files, add letters for the same reason, i.e. 01a_, 01b_...
Regarding documentation, it would be cool to have a simplistic "#Pipeline overview" of what the pipeline does...
Add IDs to the rules so the rule orders are easier to understand, i.e.
00_helper_functions.smk,01_prepare_fastqs.smk, etc.Also, within the files, add letters for the same reason, i.e.
01a_,01b_...Regarding documentation, it would be cool to have a simplistic "#Pipeline overview" of what the pipeline does...