RADseq reads of Atlantic cod from the northwest Atlantic
RAD libraries were prepared and sequenced by Floragenex Inc. Libraries were prepared from 50 L of DNA per sample with concentrations of 10-20 ng/l.  Restriction digestion was performed with the SbfI enzyme and 300-500 base pair fragments were size selected. Individual DNA samples were barcoded with uniquely indexed nucleotides, to allow for the pooling of 95 multiplexed individuals per library. The resulting RAD libraries were sequenced using Illumina 1 x 100 bp chemistries. Raw reads were demultiplexed using the process_radtags module of the Stacks v1.35 pipeline with the following options: -c -q -r --retain-header --filter-illumina