snakemake-workflow-template provides a generic project template for use in Snakemake workflows. This structure is derived from the recommended Snakemake directory structure (here), with a few modifications to make that I found more compatible with research and work conducted on high-performance compute (HPC) clusters.
To use this template you can select Use this template from the repo home page. Alternatively, you clone it through the web url followed by a few commands to clean things up:
$ git clone [repo web url]
$ mv snakemake-workflow-template/ [workflow-name]
$ cd [workflow-name]
$ find . -type f -name "*.gitignore" -exec rm -f {} +