Alternatives and similar repositories for ppx:

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

• bigbio / quantms
  Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…
  ☆35Updated this week
• wfondrie / mokapot
  Fast and flexible semi-supervised learning for peptide detection in Python
  ☆43Updated 2 months ago
• statisticalbiotechnology / triqler
  The triqler (TRansparent Identification-Quantification-linked Error Rates)'s source and example code
  ☆21Updated last month
• jessegmeyerlab / proteomics-tutorial
  ☆56Updated 9 months ago
• bigbio / pmultiqc
  A library for QC report based on MultiQC framework
  ☆14Updated 3 months ago
• kentsisresearchgroup / UltraQuant
  MaxQuant with snakemake and singularity workflow for open and scalable mass spectrometry data analysis on Linux computing clusters
  ☆26Updated 6 years ago
• MannLabs / timsrust
  ☆25Updated 2 weeks ago
• UWPR / Comet
  An tandem mass spectrometry (MS/MS) sequence database search tool.
  ☆47Updated this week
• Villen-Lab / pyAscore
  A python package for fast post translational modification localization, powered by Cython.
  ☆18Updated last year
• PRIDE-Archive / pridepy
  Python client for PRIDE Archive Rest API.
  ☆19Updated this week
• MannLabs / structuremap
  Python package for investigating the structural context of PTMs
  ☆28Updated last month
• bittremieux-lab / ANN-SoLo
  Spectral library searching using approximate nearest neighbor techniques.
  ☆42Updated 6 months ago
• compomics / psm_utils
  Common utilities for parsing and handling peptide-spectrum matches and search engine results in Python
  ☆26Updated last month
• pFindStudio / pDeep3
  MS/MS prediction for peptides
  ☆22Updated 4 years ago
• 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 2 months ago
• Proteobench / ProteoBench
  ProteoBench is an open and collaborative platform for community-curated benchmarks for proteomics data analysis pipelines. Our goal is to…
  ☆43Updated this week
• gtluu / timsconvert
  ☆35Updated 3 weeks ago
• wilhelm-lab / oktoberfest
  Rescoring and spectral library generation pipeline for proteomics.
  ☆37Updated 2 weeks ago
• statisticalbiotechnology / diffacto
  ☆13Updated 11 months ago
• Roestlab / massdash
  MassDash: A web-based dashboard for streamlined DIA-MS visualization, analysis, prototyping, and optimization
  ☆20Updated this week
• bigbio / proteomics-sample-metadata
  The Proteomics sample metadata: Standard for experimental design annotation in proteomics datasets
  ☆80Updated 4 months ago
• mfitzp / padua
  Proteomic Data Analysis with Python (pandas, scikit-learn, numpy, scipy)
  ☆23Updated last year
• fgcz / prolfqua
  Differential Expression Analysis tool box R lang package for omics data
  ☆42Updated last week
• mathiaskalxdorf / IceR
  Quantitative proteomics workflow
  ☆15Updated 2 years ago
• bittremieux-lab / GLEAMS
  GLEAMS is a Learned Embedding for Annotating Mass Spectra.
  ☆23Updated last year
• MarcIsak / MSLibrarian
  MSLibrarian is an R-package to optimize predicted spectral libraries for DIA proteomics
  ☆14Updated 2 years ago
• kusterlab / universal_spectrum_explorer
  ☆15Updated 3 years ago
• shuzhao-li / mummichog
  pathway and network analysis for metabolomics
  ☆40Updated 8 months ago
• compomics / ms2pip
  MS²PIP: Fast and accurate peptide spectrum prediction for multiple fragmentation methods, instruments, and labeling techniques.
  ☆40Updated 3 weeks ago
• Nesvilab / IonQuant
  A label free quantification tool.
  ☆16Updated 8 months ago