MannLabs/alphapeptdeep
Deep learning framework for proteomics
Builds modular deep learning models for peptide property prediction (retention time, collision cross section, MS2 spectra) with transfer learning support, enabling library generation from FASTA sequences. Provides pre-trained models and integrates with the AlphaPept ecosystem via standardized interfaces for shotgun proteomics workflows. Offers flexible deployment across GUI, CLI, and Python API with optional GPU acceleration and raw data format support through AlphaRaw.
146 stars.
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146
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25
Language
Jupyter Notebook
License
Apache-2.0
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Last pushed
Mar 11, 2026
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