Alternatives and similar repositories for mokapot

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

• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆50Updated this week
• Villen-Lab / pyAscore
  A python package for fast post translational modification localization, powered by Cython.
  ☆20Updated 2 years ago
• statisticalbiotechnology / triqler
  The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code
  ☆24Updated 3 months ago
• CompOmics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆47Updated last week
• wfondrie / ppx
  A Python interface to proteomics data repositories
  ☆36Updated 7 months ago
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated last year
• CompOmics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆29Updated 3 weeks ago
• CompOmics / ms2rescore
  Modular and user-friendly platform for AI-assisted rescoring of peptide identifications
  ☆62Updated this week
• CompOmics / DeepLC
  DeepLC: Retention time prediction for peptides carrying any modification.
  ☆72Updated last week
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆52Updated last week
• MannLabs / timsrust
  ☆27Updated 8 months ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆53Updated last week
• HaoGroup-ProtContLib / Protein-Contaminant-Libraries-for-DDA-and-DIA-Proteomics
  This project is created by the Hao Lab at the Chemistry Department in George Washington University, Washington, D.C. This project aims to…
  ☆31Updated last year
• jessegmeyerlab / proteomics-tutorial
  ☆67Updated last year
• bittremieuxlab / ANN-SoLo
  Spectral library searching using approximate nearest neighbor techniques.
  ☆48Updated 8 months ago
• wilhelm-lab / koina
  Democratizing ML in proteomics
  ☆51Updated this week
• HUPO-PSI / mzSpecLib
  mzSpecLib: A standard format to exchange/distribute spectral libraries
  ☆30Updated 2 months ago
• ProteomicsML / ProteomicsML
  Community-curated tutorials and datasets for ML in proteomics
  ☆55Updated 2 months ago
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆32Updated 3 months ago
• thermofisherlsms / iapi
  Instrument Application Programming Interface
  ☆51Updated 3 months ago
• gtluu / timsconvert
  ☆44Updated 10 months ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆60Updated last week
• statisticalbiotechnology / diffacto
  ☆13Updated last year
• smith-chem-wisc / FlashLFQ
  Ultra-fast label-free quantification algorithm for mass-spectrometry proteomics
  ☆23Updated 5 months ago
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆98Updated this week
• pFindStudio / pGlyco3
  ☆21Updated 11 months ago
• shuzhao-li-lab / asari
  asari, metabolomics data preprocessing
  ☆57Updated last month
• kevinkovalchik / RawTools
  RawTools is an open-source and freely available package designed to perform scan data parsing and quantification, and quality control ana…
  ☆67Updated 2 weeks ago
• smith-chem-wisc / MetaMorpheus
  Proteomics search software with integrated calibration, PTM discovery, bottom-up, top-down and LFQ capabilities
  ☆105Updated 2 weeks ago
• bigbio / quantms
  Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…
  ☆64Updated last week