Some scripts that are potentially useful for analyzing statistical biotechnology data.
percolator_xml.py
Python script that contains classes for parsing pin- and pout-XML files.
/Viktor
submitter.py
Python script for submitting jobs to clusters Uppmax and Ferlin or locally. Specifically jobs with MS-GF+ and Crux.
It is a bit convoluted, but could be useful for looking up some commands for submitting jobs. Requires some
corrections.
/Viktor
PeptideUtilities.py
Some calculations for peptides, written by Luminita.
parse_qvality_output.py
Script for parsing the output from Qvality.
/Viktor
parse_fasta.py
Script for parsing fasta files.
/Viktor
plots.py
Script that contains code for a heatmap (2D-histogram) or a pq-plot.
/Viktor
tandem_runner.py
A script for running tandem jobs locally, requires some corrections.
/Viktor
parsimony.py
A script generating the pasimonius set of proteins from percolator output. /LK