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.
  ☆78Updated last week
• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆43Updated this week
• MannLabs / alphapeptdeep
  Deep learning framework for proteomics
  ☆114Updated last week
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆37Updated 2 weeks ago
• MannLabs / ProteomicsVisualization
  This is a collection of minimal code to visualize various aspects of proteomics data.
  ☆71Updated 3 years ago
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆45Updated last month
• MannLabs / alphaviz
  AlphaViz is a cutting-edge browser-based interactive visualization tool allowing to visualize the processed mass spectrometry data acquir…
  ☆30Updated 8 months ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆45Updated this week
• compomics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆58Updated last month
• MannLabs / alphapeptstats
  Python Package for the downstream analysis of mass-spectrometry-based proteomics data
  ☆64Updated this week
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆80Updated 3 months ago
• Nesvilab / MSFragger
  Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
  ☆110Updated 6 months ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆43Updated this week
• MannLabs / alphadia
  modular & open DIA search
  ☆57Updated this week
• gtluu / timsconvert
  ☆34Updated this week
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆33Updated this week
• michalsta / opentims
  Open-source C++ and Python module for opening binary timsTOF data files.
  ☆44Updated last month
• compomics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆40Updated this week
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆43Updated last month
• compomics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆26Updated last month
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated 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…
  ☆64Updated last year
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆49Updated last month
• Protea-Glycosciences / GlyCombo
  GlyCombo, a combinatorial glycan composition assignment tool
  ☆12Updated last month
• jessegmeyerlab / proteomics-tutorial
  ☆56Updated 8 months ago
• diogobor / Scout
  MS-cleavable search engine that enables interactomic analysis by identifying tandem mass spectra of cross-linked peptides.
  ☆19Updated 2 months ago
• MannLabs / alphabase
  Infrastructure of AlphaX ecosystem
  ☆33Updated this week
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆22Updated last month
• lkytal / PepNet
  The state of the art Deep CNN neural network for de novo sequencing of tandem mass spectra
  ☆34Updated 2 months ago
• mafreitas / tdf2mzml
  ☆25Updated last year