Alternatives and similar repositories for pridepy:

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

• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆43Updated last month
• wfondrie / ppx
  A Python interface to proteomics data repositories
  ☆32Updated 8 months ago
• jessegmeyerlab / proteomics-tutorial
  ☆56Updated 8 months ago
• bigbio / quantms
  Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…
  ☆34Updated this week
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆45Updated this week
• Nesvilab / MSBooster
  MSBooster allows users to add deep learning-based features to .pin files before Percolator PSM rescoring
  ☆16Updated this week
• statisticalbiotechnology / triqler
  The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code
  ☆21Updated last week
• kentsisresearchgroup / UltraQuant
  MaxQuant with snakemake and singularity workflow for open and scalable mass spectrometry data analysis on Linux computing clusters
  ☆26Updated 6 years ago
• compomics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆26Updated last month
• IFIproteomics / LFQbench
  ☆24Updated last year
• 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…
  ☆23Updated last month
• tvpham / iq
  An R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
  ☆22Updated last month
• Villen-Lab / pyAscore
  A python package for fast post translational modification localization, powered by Cython.
  ☆18Updated last year
• pFindStudio / pDeep3
  MS/MS prediction for peptides
  ☆22Updated 4 years ago
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆37Updated 2 weeks ago
• statOmics / msqrob2
  Implementation of the MSqRob analysis of differentially expressed proteins using the Features infrastructure
  ☆10Updated 3 weeks ago
• MarcIsak / MSLibrarian
  MSLibrarian is an R-package to optimize predicted spectral libraries for DIA proteomics
  ☆14Updated 2 years ago
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated last week
• statisticalbiotechnology / diffacto
  ☆13Updated 10 months ago
• fgcz / prolfqua
  Differential Expression Analysis tool box R lang package for omics data
  ☆42Updated last week
• MatteoLacki / timsr
  TimsR: Easy access to timsTOF Pro data from R.
  ☆9Updated 3 years ago
• compomics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆40Updated this week
• MannLabs / timsrust
  ☆24Updated this week
• bittremieux-lab / GLEAMS
  GLEAMS is a Learned Embedding for Annotating Mass Spectra.
  ☆22Updated last year
• nf-core / metaboigniter
  Pre-processing of mass spectrometry-based metabolomics data with quantification and identification based on MS1 and MS2 data.
  ☆17Updated 3 weeks ago
• MannLabs / directlfq
  Fast and accurate label-free quantification for small and very large numbers of proteomes
  ☆43Updated this week
• bigbio / pmultiqc
  A library for QC report based on MultiQC framework
  ☆14Updated 2 months ago
• yafeng / DEqMS
  DEqMS is a tool for quantitative proteomic analysis
  ☆22Updated last month
• xia-lab / OptiLCMS
  R package for optimized LC-MS spectra processing
  ☆23Updated last month
• Vitek-Lab / MSstatsTMT
  R-based package for detecting differentially abundant proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass …
  ☆28Updated 2 months ago