Prep for 2bRAD illumina libraries borrowed from: https://github.com/DeWitP/BONUS_BAMBI_IDOTEA/blob/master/Protocol%20for%20Illumina%202b-RAD_DeWit.pdf Methods for bioinformatic analysis of pooled DNA data from larval oyster samples adapted from 2bRAD pipeline (3.0) of Dr. Eli Meyer: http://eli-meyer.github.io/2bRAD_utilities/
Please refer to the pooseq pipeline.pdf document for walkthrough