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The CroCo cross-link converter: a user-centred tool to convert results from cross-linking mass spectrometry experiments.

ABSTRACT: Motivation: A variety of search engines exists for the identification of peptide spectrum matches after cross-linking mass spectrometry experiments. The resulting diversity in output formats complicates data validation and visualization as well as exchange with collaborators, particularly from other research areas.

Results: Here, we present CroCo, a user-friendly standalone executable to convert cross-linking results to a comprehensive spreadsheet format. Using this format, CroCo can be employed to generate input files for a selection of the commonly utilized validation and visualization tools.

Availability and implementation: The source-code is freely available under a GNU general public license at https://github.com/cschmidtlab/croco. The standalone executable is available and documented at https://cschmidtlab.github.io/CroCo.

Supplementary information: Supplementary data are available at Bioinformatics online.

SUBMITTER: Bender J

PROVIDER: S-EPMC7703748 | biostudies-literature | 2020 Feb

REPOSITORIES: biostudies-literature

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The CroCo cross-link converter: a user-centred tool to convert results from cross-linking mass spectrometry experiments.

Bender Julian J Schmidt Carla C

Bioinformatics (Oxford, England) 20200201 4

<h4>Motivation</h4>A variety of search engines exists for the identification of peptide spectrum matches after cross-linking mass spectrometry experiments. The resulting diversity in output formats complicates data validation and visualization as well as exchange with collaborators, particularly from other research areas.<h4>Results</h4>Here, we present CroCo, a user-friendly standalone executable to convert cross-linking results to a comprehensive spreadsheet format. Using this format, CroCo ca ...[more]

PMID: 31562766

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