Alternatives and similar repositories for pDeep

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

• 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…
  ☆86Updated last year
• lmsac / DeepDIA
  Using deep learning to generate in silico spectral libraries for data-independent acquisition analysis.
  ☆42Updated 2 years ago
• CompOmics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆44Updated 3 months ago
• CompOmics / DeepLC
  DeepLC: Retention time prediction for (modified) peptides using Deep Learning.
  ☆65Updated 3 weeks ago
• pFindStudio / pDeep3
  MS/MS prediction for peptides
  ☆22Updated 4 years ago
• horsepurve / DeepRTplus
  Deep (Transfer) Learning for Peptide Retention Time Prediction
  ☆51Updated 3 years ago
• lkytal / PredFull
  This work was published on Analytical Chemistry: Full-Spectrum Prediction of Peptides Tandem Mass Spectra using Deep Neural Network
  ☆29Updated last year
• denisbeslic / denovopipeline
  Pipeline for de novo peptide sequencing (Novor, DeepNovo, SMSNet, PointNovo, Casanovo) and assembly with ALPS.
  ☆40Updated last year
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆37Updated last week
• CompOmics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆27Updated 2 weeks ago
• pFindStudio / pGlyco3
  ☆20Updated 4 months ago
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆47Updated 4 months ago
• MannLabs / alpharaw
  An open-source Python package to unify raw MS data accession and storage.
  ☆25Updated 2 months ago
• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆82Updated 3 months ago
• MannLabs / alphapeptdeep
  Deep learning framework for proteomics
  ☆127Updated 3 weeks ago
• bihealth / NeatMS
  NeatMS is an open source python package for untargeted LCMS signal labelling and filtering.
  ☆32Updated 3 years ago
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆43Updated this 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 2 years ago
• grosenberger / easypqp
  EasyPQP: Simple library generation for OpenSWATH
  ☆11Updated 2 months ago
• OpenMS / pyopenms_viz
  Streamlining Mass Spectrometry Data Visualization with Pandas
  ☆17Updated last month
• bittremieux-lab / GLEAMS
  GLEAMS is a Learned Embedding for Annotating Mass Spectra.
  ☆25Updated last year
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆44Updated 4 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
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆54Updated 2 months ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆51Updated 2 weeks ago
• shuzhao-li-lab / asari
  asari, metabolomics data preprocessing
  ☆50Updated 3 weeks ago
• orsburn / LCMSMethods
  The Git Account of LCMSMethods.org
  ☆11Updated 6 years ago
• HuanLab / BUDDY
  Bottom-up MS/MS interrogation & Experiment-specific global annotation
  ☆28Updated 6 months ago
• eMetaboHUB / FragHub
  ☆14Updated 3 weeks ago
• HUPO-PSI / ProForma
  HUPO-PSI Standardized peptidoform notation
  ☆19Updated last month