Open Software for Proteomics

The alphapept ecosystem is an integrated ecoysystem of state-of-the-art scientific software tools designed for proteomics research and mass spectrometry data analysis. Our mission is to provide researchers with powerful, user-friendly, interoperable, and open-source software that advances the field of proteomics.


Key Packages

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alphaDIA

Search engine for data-independent acquisition (DIA) experiments

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alphapeptdeep

Modular Deep learning for shotgun proteomics

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directLFQ

Label-free quantification for accurate protein abundance measurements

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alphaquant

Accurate and sensitive peptide and protein quantification with trees


Mission and Values

The alphapept ecosystem is founded on the following principles:


Getting Started

Explore our ecosystem to find the right tools for your research, learn about our mission, or stay updated with the latest developments in our news section.


Contribute

Ready to contribute? Check out our contributors page to see how you can get involved in the alphapept ecosystem.