Protein Identification with Deep Learning
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
modular & open DIA search
Collects software dedicated to predicting specific properties of peptides
Ursgal - universal Python module combining common bottom-up proteomics tools for large-scale analysis
MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics
A tool for mass spectrometry data analysis.
PepQuery: a targeted peptide search engine
A spectacularly simple package for working with peptide sequences.
DeepRescore: rescore PSMs leveraging deep learning-derived peptide features
PTM-Invariant Peptide Identification. An open search tool.
Predicts anticancer peptides using random forests trained on the n-gram encoded peptides. The implemented algorithm can be accessed from both the command line and shiny-based GUI.
MS Amanda is a scoring system to identify peptides out of tandem mass spectrometry data using a database of known proteins.
Protein Cleaver is a versatile tool for protein analysis and digestion.
This project has been deprecated. Please use ECL2 (https://github.com/fcyu/ECL2).
Highly customizable research-oriented peptide search engine
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