Alternatives and similar repositories for alphapeptdeep

Users that are interested in alphapeptdeep 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.
  ☆82Updated 3 months ago
• bzhanglab / deep_learning_in_proteomics
  A list of tools on proteomics using deep learning
  ☆97Updated last year
• MannLabs / alphadia
  modular & open DIA search
  ☆72Updated 2 weeks ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆58Updated 2 months ago
• Nesvilab / MSFragger
  Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
  ☆119Updated last month
• MannLabs / ProteomicsVisualization
  This is a collection of minimal code to visualize various aspects of proteomics data.
  ☆79Updated 3 years ago
• MannLabs / alphapeptstats
  Python Package for the downstream analysis of mass-spectrometry-based proteomics data
  ☆69Updated this week
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆43Updated this week
• 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…
  ☆87Updated 3 months ago
• Noble-Lab / casanovo
  De Novo Mass Spectrometry Peptide Sequencing with a Transformer Model
  ☆142Updated last week
• CompOmics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆65Updated 2 weeks ago
• wfondrie / depthcharge
  A deep learning toolkit for mass spectrometry
  ☆79Updated 11 months ago
• diogobor / Scout
  MS-cleavable search engine that enables interactomic analysis by identifying tandem mass spectra of cross-linked peptides.
  ☆19Updated 2 weeks ago
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆37Updated last week
• MannLabs / alphabase
  Infrastructure of AlphaX ecosystem
  ☆38Updated 3 weeks ago
• vdemichev / diann-rpackage
  Report processing and protein quantification for MS-based proteomics
  ☆46Updated last year
• levitsky / pyteomics
  Pyteomics is a collection of lightweight and handy tools for Python that help to handle various sorts of proteomics data. Pyteomics provi…
  ☆128Updated this week
• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆46Updated this week
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆54Updated 2 months ago
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated 5 months ago
• CompOmics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆44Updated 3 months ago
• gagneurlab / spectralis
  ☆14Updated 8 months ago
• pFindStudio / pGlyco3
  ☆20Updated 4 months ago
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆31Updated 3 months ago
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆47Updated 4 months ago
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆87Updated 2 months ago
• michalsta / opentims
  Open-source C++ and Python module for opening binary timsTOF data files.
  ☆48Updated last week
• lkytal / PepNet
  The state of the art Deep CNN neural network for de novo sequencing of tandem mass spectra
  ☆35Updated 7 months ago
• Roestlab / PythonProteomics
  A collection of available Python tools for Proteomics analysis
  ☆56Updated 6 years ago
• denisbeslic / denovopipeline
  Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
  ☆40Updated last year