Alternatives and similar repositories for alphapeptdeep

Users that are interested in alphapeptdeep are comparing it to the libraries listed below

• bzhanglab / deep_learning_in_proteomics
  A list of tools on proteomics using deep learning
  ☆106Updated last year
• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆86Updated 2 months ago
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆43Updated 2 months ago
• MannLabs / alphatims
  An open-source Python package for efficient accession and visualization of Bruker TimsTOF raw data from the Mann Labs at the Max Planck I…
  ☆90Updated 2 months ago
• CompOmics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆70Updated last month
• MannLabs / alphadia
  modular & open DIA search
  ☆80Updated this week
• pFindStudio / pGlyco3
  ☆20Updated 8 months ago
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆49Updated last week
• Nesvilab / MSFragger
  Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
  ☆121Updated 3 months ago
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆55Updated last month
• MannLabs / alphapeptstats
  Python Package for the downstream analysis of mass-spectrometry-based proteomics data
  ☆74Updated last month
• CompOmics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆47Updated 7 months ago
• Noble-Lab / casanovo
  De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model
  ☆163Updated this week
• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆48Updated this week
• wfondrie / depthcharge
  A deep learning toolkit for mass spectrometry
  ☆82Updated last year
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated 9 months ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆60Updated 2 months ago
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆48Updated 8 months ago
• michalsta / opentims
  Open-source C++ and Python module for opening binary timsTOF data files.
  ☆49Updated 4 months ago
• CompOmics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆29Updated last week
• CompOmics / ms2rescore
  Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
  ☆62Updated last week
• MannLabs / ProteomicsVisualization
  This is a collection of minimal code to visualize various aspects of proteomics data.
  ☆83Updated 3 years ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆54Updated 2 weeks ago
• Roestlab / PythonProteomics
  A collection of available Python tools for Proteomics analysis
  ☆61Updated 6 years ago
• diogobor / Scout
  MS-cleavable search engine that enables interactomic analysis by identifying tandem mass spectra of cross-linked peptides.
  ☆21Updated 3 months ago
• kusterlab / prosit
  Prosit offers high quality MS2 predicted spectra for any organism and protease as well as iRT prediction. When using Prosit is helpful fo…
  ☆90Updated 2 years ago
• statisticalbiotechnology / diffacto
  ☆13Updated last year
• Functional-Metabolomics-Lab / FBMN-STATS
  FBMN-STATS: A hitchhiker's guide to statistical analysis of Feature-based Molecular Networks
  ☆40Updated 4 months ago
• gagneurlab / spectralis
  ☆14Updated last year
• wilhelm-lab / dlomix
  Python framework for Deep Learning in Proteomics
  ☆31Updated 2 months ago