Sliding window analyses with vcf files
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Revision as of 13:23, 16 June 2015 by Michamat@uio.no (talk | contribs) (Created page with "== Intro == After SNP calling, the next step will often be an analysis of genetic variation and population differentiation across linkage groups. We have a script developed t...")
Intro
After SNP calling, the next step will often be an analysis of genetic variation and population differentiation across linkage groups. We have a script developed that is supposed to allow this directly with vcf files, and the use of this script (called run_sliding_windows_over_vcf.py) is described below.
Preparation
The script is written in python3, and it requires a few python packages to be installed in order to run. First of all, load python3 with
$ module load python3
