Data (SRA SRP035472)

The postdemultiplexing quality filtered data (i.e. output of "Demultiplexing and dropbase" of this repository) is available at the Sequence Read Archive (SRA), accession SRP035472. Those files were used to run Stacks and the resulted matrices coverage and SNP matrices produced after running the Stacks script *export_sql.pl* along with the subsequent files used to perform the analyses on R. See contents of the [2R](./2R) directory. For the rest of the pipeline the scripts used and when available and output summary are presented inside each directory