Crosslink Utils

Helper scripts for crosslink analysis.

Requirements

• Python 3.10+
• Packages as specified in requirements.txt: pip install -r requirements.txt

find_shortest.py

• Finds the shortest cross-linked residue pair per crosslink in a mulitmeric structure of proteins with equal sequences.
• A detailed description of the script parameters is given in the script.
• Example usage:

  python find_shortest.py data/pyXlinkViewer_export.py -c AB,CD -t 27.0
  

Citing

If you are using scripts of this repository please cite:

MS Annika 2.0 Identifies Cross-Linked Peptides in MS2–MS3-Based Workflows at High Sensitivity and Specificity
Micha J. Birklbauer, Manuel Matzinger, Fränze Müller, Karl Mechtler, and Viktoria Dorfer
Journal of Proteome Research 2023 22 (9), 3009-3021
DOI: 10.1021/acs.jproteome.3c00325

License

• MIT

Contact

micha.birklbauer@fh-hagenberg.at