Alternatives and similar repositories for koina

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

• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆49Updated last week
• MannLabs / alphapeptdeep
  Deep learning framework for proteomics
  ☆137Updated 3 weeks 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…
  ☆92Updated last week
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆52Updated last month
• wfondrie / depthcharge
  A deep learning toolkit for mass spectrometry
  ☆85Updated last month
• CompOmics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆72Updated 2 months ago
• CompOmics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆29Updated last month
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆49Updated 9 months ago
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆51Updated 2 months ago
• CompOmics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆47Updated 8 months ago
• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆89Updated 3 weeks ago
• CompOmics / ms2rescore
  Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
  ☆62Updated last week
• pFindStudio / pGlyco3
  ☆20Updated 9 months ago
• bzhanglab / deep_learning_in_proteomics
  A list of tools on proteomics using deep learning
  ☆106Updated last year
• MannLabs / alphadia
  modular & open DIA search
  ☆93Updated this week
• Nesvilab / MSFragger
  Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
  ☆123Updated 5 months ago
• michalsta / opentims
  Open-source C++ and Python module for opening binary timsTOF data files.
  ☆49Updated 5 months ago
• MannLabs / alphapeptstats
  Python Package for the downstream analysis of mass-spectrometry-based proteomics data
  ☆78Updated 2 weeks ago
• diogobor / Scout
  MS-cleavable search engine that enables interactomic analysis by identifying tandem mass spectra of cross-linked peptides.
  ☆21Updated this week
• theGreatHerrLebert / sagepy
  A python interface to the SAGE search engine for mass spectrometry proteomics
  ☆15Updated 2 months ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆60Updated 3 weeks ago
• Noble-Lab / casanovo
  De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model
  ☆169Updated last week
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆55Updated last month
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆32Updated last month
• mafreitas / tdf2mzml
  ☆29Updated 2 years ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆53Updated last week
• kevinkovalchik / RawTools
  RawTools is an open-source and freely available package designed to perform scan data parsing and quantification, and quality control ana…
  ☆66Updated 2 years ago
• shuzhao-li-lab / asari
  asari, metabolomics data preprocessing
  ☆55Updated this week
• smith-chem-wisc / MetaMorpheus
  Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities
  ☆104Updated 2 weeks ago
• gtluu / timsconvert
  ☆44Updated 8 months ago