Alternatives and similar repositories for pDeep:

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

• horsepurve / DeepRTplus
  Deep (Transfer) Learning for Peptide Retention Time Prediction
  ☆48Updated 3 years ago
• lmsac / DeepDIA
  Using deep learning to generate in silico spectral libraries for data-independent acquisition analysis.
  ☆41Updated 2 years ago
• pFindStudio / pDeep3
  MS/MS prediction for peptides
  ☆22Updated 4 years 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…
  ☆85Updated last year
• compomics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆41Updated last month
• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆79Updated this week
• compomics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆58Updated 2 weeks ago
• lkytal / PredFull
  This work was published on Analytical Chemistry: Full-Spectrum Prediction of Peptides Tandem Mass Spectra using Deep Neural Network
  ☆28Updated last year
• grosenberger / easypqp
  EasyPQP: Simple library generation for OpenSWATH
  ☆10Updated last month
• fickludd / dinosaur
  Feature finding algorithm for detection of isotope patterns in HPLC mass spectrometry data.
  ☆43Updated 2 years ago
• denisbeslic / denovopipeline
  Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
  ☆38Updated 11 months ago
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆34Updated last week
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆45Updated last week
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆47Updated this week
• bihealth / NeatMS
  NeatMS is an open source python package for untargeted LCMS signal labelling and filtering.
  ☆32Updated 3 years ago
• compomics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆26Updated last month
• MannLabs / alphadia
  modular & open DIA search
  ☆61Updated this week
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated last month
• bittremieux-lab / GLEAMS
  GLEAMS is a Learned Embedding for Annotating Mass Spectra.
  ☆23Updated last year
• MannLabs / alphapeptdeep
  Deep learning framework for proteomics
  ☆116Updated 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…
  ☆84Updated 2 months ago
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆43Updated 2 months ago
• OpenMS / pyopenms_viz
  Streamlining Mass Spectrometry Data Visualization with Pandas
  ☆11Updated last week
• MannLabs / alpharaw
  An open-source Python package to unify raw MS data accession and storage.
  ☆19Updated this week
• orsburn / LCMSMethods
  The Git Account of LCMSMethods.org
  ☆11Updated 5 years ago
• shuzhao-li-lab / asari
  asari, metabolomics data preprocessing
  ☆44Updated this week
• msproteomicstools / msproteomicstools
  Some hopefully useful tools for mass spectrometry applied to proteomics
  ☆52Updated 3 years ago
• wilhelm-lab / PROSPECT
  Proteomics Mass Spectrometry Datasets for Machine Learning
  ☆13Updated 6 months ago
• smith-chem-wisc / FlashLFQ
  Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics
  ☆20Updated 2 months ago
• pnnl / deimos
  ☆33Updated 2 months ago