Getting into population genomics can be a daunting task for even an experienced population geneticist. dDocent’s purpose is to be a standalone laboratory protocol and analysis pipeline for double digest Restriction site Associated DNA (ddRAD) sequencing (the pipeline should also work with ezRAD). See the original ddRAD publication here. The laboratory protocol largely follows Peterson et al. (2012), but is focused down to specifically what has worked best for us in the Gold lab. dDocent was originally designed for marine fish populations, but can be customized for many different taxa with a little bit of hard work.
module add dDocent-2.18
The MIT License (MIT)