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maxquant-proteomics

Facilitates proteomics analysis using MaxQuant and Perseus, enabling statistical analysis and visualization of protein data in Python.

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The maxquant-proteomics skill was audited on May 24, 2026 and we found 8 security issues across 1 threat category. Review the findings below before installing.

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Security Issues

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External URL reference

SourceSKILL.md
26- **MaxQuant**: Windows software; download from https://maxquant.org/ (v2.4+); requires .NET 6 runtime
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SourceSKILL.md
595url = "https://string-db.org/api/json/enrichment"
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672- [MaxQuant software and documentation](https://maxquant.org/) — official MaxQuant download, manual, and parameter guide
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SourceSKILL.md
673- [Perseus computational platform](https://maxquant.net/perseus/) — MaxQuant companion statistical analysis tool; basis for the Python workflow above
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674- [Cox et al. (2008) *Nature Biotechnology* — MaxQuant paper](https://doi.org/10.1038/nbt.1511) — original MaxQuant publication describing the MaxLFQ algorithm
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SourceSKILL.md
675- [Tyanova et al. (2016) *Nature Methods* — Perseus paper](https://doi.org/10.1038/nmeth.3901) — Perseus statistical framework reference; all workflow steps above mirror Perseus operations
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SourceSKILL.md
677- [gseapy documentation](https://gseapy.readthedocs.io/) — gene set enrichment analysis library used in Step 8
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SourceSKILL.md
678- [STRING API enrichment](https://string-db.org/help/api/) — protein network enrichment endpoint used in Common Recipes
Scanned on May 24, 2026
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Categorydata analytics
UpdatedJune 15, 2026
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