Multi-Dimensional Retention Time Prediction for Linear and Crosslinked Peptides
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Jul 29, 2025 - Python
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crosslinking
Here are 22 public repositories matching this topic...
MS Annika is a crosslink search engine based on MS Amanda, aimed at identifying crosslinks of cleavable and non-cleavable crosslinkers from MS2 and MS3 spectra.
search-engine proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 crosslinking xlms crosslinker tandem-ms non-cleavable cleavable
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Apr 9, 2026
A python package to process protein cross-linking data.
python package gui protein webapp proteomics mass-spectrometry interaction spectrometry ppi mass cross-linking interactomics crosslinking xlms crosslinker pyxlms
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Mar 21, 2026 - Python
Export MS Annika crosslink results to different formats.
visualization python proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 crosslinking xlms crosslinker tandem-ms
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Jun 25, 2025 - Python
Calculates Intensities of Cross-linked Peptides from MS Annika CSMs.
python annotation proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 fragment-ions crosslinking xlms crosslinker tandem-ms doublet-ions
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Dec 19, 2024 - Python
Extensions for better usability of the cross-linking tool MaXLinker.
python proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 crosslinking xlms crosslinker tandem-ms
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Sep 4, 2023 - Python
A comprehensive user guide for pyXLMS built with Nextra.
documentation webapp proteomics mass-spectrometry interaction spectrometry ppi mass cross-linking interactomics nextra crosslinking xlms crosslinker pyxlms
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Mar 22, 2026 - MDX
Results, figures, and code for the manuscript of pyXLMS.
python package gui protein webapp proteomics mass-spectrometry interaction spectrometry ppi mass cross-linking interactomics crosslinking xlms crosslinker pyxlms
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Mar 23, 2026 - Jupyter Notebook
Repository containing scripts used for the analysis and visualization of the results of the MS Annika 3.0 non-cleavable crosslink search.
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Dec 19, 2024 - HTML
Short talk presentation, poster and abstract for APMRS-CEEPC 2024
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Sep 20, 2024
A comprehensive user guide for pyXLMS built with Nextra.
documentation webapp proteomics mass-spectrometry interaction spectrometry ppi mass cross-linking interactomics nextra crosslinking xlms crosslinker pyxlms
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Feb 13, 2026 - MDX
Link to the web application for pyXLMS.
python package gui protein webapp proteomics mass-spectrometry interaction spectrometry ppi mass cross-linking interactomics crosslinking xlms crosslinker pyxlms
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Dec 11, 2025
Generate a spectral library for Spectronaut from MS Annika results.
python fragments library spectral proteomics mass-spectrometry spectrometry mass cross-linking ms2 spectral-library fragment-ions crosslinking spectronaut xlms crosslinker tandem-ms
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Apr 14, 2026 - Python
MS Annika webpage built with nextra.
search-engine proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 crosslinking xlms crosslinker tandem-ms non-cleavable cleavable
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Apr 9, 2026 - MDX
A template repository for python scripts and projects using pyXLMS.
python protein proteomics mass-spectrometry interaction spectrometry ppi mass cross-linking interactomics crosslinking xlms crosslinker pyxlms
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Mar 23, 2026 - Python
Helper scripts for crosslink analysis.
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Jan 8, 2026 - Jupyter Notebook
Rescoring of Spectronaut Crosslinking Results with Mokapot.
python library spectral proteomics mass-spectrometry spectrometry mass cross-linking ms2 spectral-library crosslinking spectronaut xlms crosslinker tandem-ms
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Apr 14, 2026 - Jupyter Notebook
List of all available extensions for our cross-linking search engine MS Annika.
search-engine extension proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 crosslinking xlms crosslinker tandem-ms
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Jun 25, 2025
MS Annika webpage built with nextra.
search-engine proteomics mass-spectrometry spectrometry mass cross-linking ms2 ms3 crosslinking xlms crosslinker tandem-ms non-cleavable cleavable
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Apr 9, 2026 - MDX
Short Talk Presentation for APMRS 2022
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Dec 30, 2022
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