Repository for my projects during my secondment at Brandes University

Structure

There is one central Snakefile in the root, which calls other Snakefiles under shared/code/snakefiles/.

Also, there is one config.yaml configuration file, which is currently configured to work with data at the Rajewsky lab server, murphy.

Upon running snakemake one should use the --use-cores flag, with at least 16 cores, and also the --conda flag, as some scripts will use a conda environment with python2.

The script will generate a folder structure like <person>/<project>/data. Every file generated will be found under this. As a result, the data folders are always in the .gitignore'