Alternatives and similar repositories for PDV

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

• MSGFPlus / msgfplus
  MS-GF+ (aka MSGF+ or MSGFPlus) performs peptide identification by scoring MS/MS spectra against peptides derived from a protein sequence …
  ☆81Updated 3 weeks ago
• vdemichev / diann-rpackage
  Report processing and protein quantification for MS-based proteomics
  ☆49Updated 2 years ago
• Vitek-Lab / MSstats
  R package - MSstats
  ☆87Updated last month
• IFIproteomics / LFQbench
  ☆24Updated 2 years ago
• bigbio / quantms
  Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…
  ☆64Updated 2 weeks ago
• Nesvilab / philosopher
  PeptideProphet, PTMProphet, ProteinProphet, iProphet, Abacus, and FDR filtering
  ☆120Updated 2 weeks ago
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆98Updated last month
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆60Updated this week
• Nesvilab / MSFragger
  Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics
  ☆122Updated 4 months ago
• MannLabs / ProteomicsVisualization
  This is a collection of minimal code to visualize various aspects of proteomics data.
  ☆83Updated 3 years ago
• jessegmeyerlab / proteomics-tutorial
  ☆66Updated last year
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆54Updated last week
• MannLabs / alphamap
  An open-source Python package for the visual annotation of proteomics data with sequence specific knowledge.
  ☆86Updated 2 months ago
• ftwkoopmans / msdap
  MS-DAP: downstream analysis pipeline for quantitative proteomics
  ☆39Updated 8 months ago
• fgcz / prolfqua
  Differential Expression Analysis tool box R lang package for omics data
  ☆46Updated last week
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆31Updated last month
• Nesvilab / FragPipe
  A cross-platform proteomics data analysis suite
  ☆265Updated this week
• MonashBioinformaticsPlatform / LFQ-Analyst
  The repo for LFQ-Analyst
  ☆30Updated last year
• LiChenPU / NetID
  A global network optimization approach for untargeted LC-MS metabolomics data annotation and metabolite discovery
  ☆48Updated 2 years ago
• RasmussenLab / pimms
  Imputing proteomics data using deep learning models
  ☆30Updated this week
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆48Updated 8 months ago
• cbielow / PTXQC
  A Quality Control (QC) pipeline for Proteomics (PTX) results generated by MaxQuant
  ☆47Updated 4 months ago
• PRIDE-Archive / pridepy
  Python client for PRIDE Archive Rest API.
  ☆26Updated 3 weeks ago
• smith-chem-wisc / MetaMorpheus
  Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities
  ☆103Updated 2 weeks ago
• statisticalbiotechnology / triqler
  The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code
  ☆24Updated last month
• MatteoLacki / timsr
  TimsR: Easy access to timsTOF Pro data from R.
  ☆12Updated 4 years ago
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆55Updated 2 weeks ago
• pwilmart / PAW_pipeline
  A Comet-based, best practices proteomics pipeline.
  ☆39Updated last year
• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆49Updated this week
• CompOmics / moFF
  A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
  ☆33Updated 4 years ago