The sdnotes.org file is a notebook describing the steps taken, scripts and tools used etc.
To generate the table with polymorphisms run:
-
copy the data file "BK_SRRsorted_v2.mpileup" to the /data folder (download from here https://drive.google.com/open?id=1gSSMJzyU84fVbdlpErcFkMHAfihDnQcI)
-
in the /scripts folder, run:
python utils.py