Extensions to use the cross-linking tool Scout with other software.
Python 3.7+ and the following packages are required:
- Install pandas:
pip install pandas - Install xlsxwriter:
pip install xlsxwriter
Scout to IMP-X-FDR converter
The main purpose of this script is to convert Scout output files to MS Annika format - which are usable with the IMP-X-FDR tool. This way Scout can be benchmarked on synthetic peptide libraries.
DESCRIPTION:
A script to convert Scout *.csv result files to MS Annika format as
Microsoft Excel worksheets for usage with IMP-X-FDR (v1.1.0).
USAGE:
scoutToIMPXFDR.py f [f ...]
[-o OUTPUT]
[-xl CROSSLINKER]
[-xlmod CROSSLINKER_MODIFICATION]
[-h]
[--version]
positional arguments:
f Scout result file to process, if second filename
is given it will be used as the output name!
optional arguments:
-h, --help show this help message and exit.
-o OUTPUT, --output OUTPUT
Name of the output file.
-xl CROSSLINKER, --crosslinker CROSSLINKER
Name of the Crosslinker e.g. DSSO.
-xlmod CROSSLINKER_MODIFICATION, --crosslinker-modification CROSSLINKER_MODIFICATION
Residue that the Crosslinker binds to e.g. K for DSSO.
--version show program's version number and exit.
Example Usage:
python scoutToIMPXFDR.py my_scout_results.csv -o my_scout_results_converted -xl DSSO -xlmod K