Alternatives and similar repositories for alphatims

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

• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆90Updated last month
• michalsta / opentims
  Open-source C++ and Python module for opening binary timsTOF data files.
  ☆49Updated 6 months ago
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆52Updated last week
• MannLabs / alphapeptdeep
  Deep learning framework for proteomics
  ☆140Updated 2 weeks ago
• MannLabs / alphadia
  modular & open DIA search
  ☆96Updated last week
• MannLabs / alphapeptstats
  Python Package for the downstream analysis of mass-spectrometry-based proteomics data
  ☆79Updated last month
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆51Updated 3 weeks ago
• Nesvilab / MSFragger
  Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
  ☆124Updated last week
• CompOmics / DeepLC
  DeepLC: Retention time prediction for peptides carrying any modification.
  ☆72Updated 3 weeks ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆60Updated last week
• gtluu / timsconvert
  ☆44Updated 9 months ago
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆51Updated 3 months ago
• bzhanglab / deep_learning_in_proteomics
  A list of tools on proteomics using deep learning
  ☆106Updated last year
• MannLabs / alphaviz
  AlphaViz is a cutting-edge browser-based interactive visualization tool allowing to visualize the processed mass spectrometry data acquir…
  ☆35Updated 8 months ago
• MannLabs / ProteomicsVisualization
  This is a collection of minimal code to visualize various aspects of proteomics data.
  ☆82Updated 3 years ago
• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆50Updated last week
• CompOmics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆47Updated last week
• theGreatHerrLebert / sagepy
  A python interface to the SAGE search engine for mass spectrometry proteomics
  ☆15Updated last week
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆32Updated 2 months ago
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆49Updated 10 months ago
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆98Updated 3 months ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆53Updated this week
• MannLabs / alphabase
  Infrastructure of AlphaX ecosystem
  ☆51Updated 2 weeks ago
• pFindStudio / pGlyco3
  ☆21Updated 10 months ago
• MatteoLacki / timspy
  ☆22Updated 4 years ago
• thermofisherlsms / RawFileReader
  ☆65Updated 9 months ago
• CompOmics / ms2rescore
  Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
  ☆62Updated last week
• diogobor / Scout
  MS-cleavable search engine that enables interactomic analysis by identifying tandem mass spectra of cross-linked peptides.
  ☆21Updated last week
• CompOmics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆29Updated last week
• vdemichev / diann-rpackage
  Report processing and protein quantification for MS-based proteomics
  ☆50Updated 2 years ago