Protein Identification with Deep Learning
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Updated
Nov 27, 2020 - Python
Protein Identification with Deep Learning
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.
Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
Collects software dedicated to predicting specific properties of peptides
Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
PTM-Invariant Peptide Identification. An open search tool.
Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics
A tool for mass spectrometry data analysis.
DeepRescore: rescore PSMs leveraging deep learning-derived peptide features
modular & open DIA search
This project has been deprecated. Please use ECL2 (https://github.com/fcyu/ECL2).
Tools for filtering k-mer data
Protein Cleaver is a versatile tool for protein analysis and digestion.
Miscellaneous Scripts in Bioinformatics
Toolset to make proteomics data analysis less tedious.
PredGenesGetPepts is an easy-to-use, beginner-friendly pipeline to call genes from fasta files, retrieve peptides and blasting them against a given protein database
MS Amanda is a scoring system to identify peptides out of tandem mass spectrometry data using a database of known proteins.
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