Alternatives and similar repositories for DEqMS:

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

• bartongroup / Proteus
  R package for analysing proteomics data
  ☆49Updated last year
• 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
• fgcz / prolfqua
  Differential Expression Analysis tool box R lang package for omics data
  ☆42Updated last week
• DavisLaboratory / msImpute
  Methods for label-free mass spectrometry proteomics
  ☆14Updated last year
• saezlab / cosmosR
  COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data…
  ☆59Updated 5 months ago
• MonashBioinformaticsPlatform / LFQ-Analyst
  The repo for LFQ-Analyst
  ☆29Updated 5 months ago
• rformassspectrometry / QFeatures
  Quantitative features for mass spectrometry data
  ☆26Updated last week
• bzhanglab / OmicsEV
  A tool for large scale omics datasets evaluation
  ☆24Updated last year
• jeffsocal / tidyproteomics
  An S3 data object and framework for common quantitative proteomic analyses
  ☆38Updated last month
• statOmics / msqrob2
  Implementation of the MSqRob analysis of differentially expressed proteins using the Features infrastructure
  ☆10Updated 3 weeks ago
• tidymass / tidymass
  tidymass
  ☆54Updated last year
• kentsisresearchgroup / UltraQuant
  MaxQuant with snakemake and singularity workflow for open and scalable mass spectrometry data analysis on Linux computing clusters
  ☆26Updated 6 years ago
• pnnl / leapR
  ☆17Updated last month
• Biobix / proteoformer
  Integration ribosome profiling - mass spectrometry
  ☆14Updated last month
• broadinstitute / PANOPLY
  Repository for the Broad Institute Proteogenomic Data Analysis Center (PGDAC) established by the NIH Clinical Proteomics Tumor Analysis C…
  ☆33Updated this week
• const-ae / proDA
  Protein Differential Abundance for Label-Free Mass Spectrometry https://const-ae.github.io/proDA/
  ☆18Updated last year
• ComputationalProteomics / NormalyzerDE
  Tools for normalization, evaluation of outliers, technical biases and batch effects and differential expression analysis.
  ☆22Updated 3 months ago
• broadinstitute / protigy
  Proteomics Toolset for Integrative Data Analysis
  ☆22Updated last year
• nf-core / mhcquant
  Identify and quantify MHC eluted peptides from mass spectrometry raw data
  ☆33Updated this week
• symbioticMe / proBatch
  Tools for Batch Effects Diagnostics and Correction
  ☆15Updated last year
• nf-core / diaproteomics
  Automated quantitative analysis of DIA proteomics mass spectrometry measurements.
  ☆16Updated this week
• uc-bd2k / GREIN
  GREIN : GEO RNA-seq Experiments Interactive Navigator
  ☆48Updated 5 years ago
• arnesmits / DEP
  DEP package
  ☆28Updated 2 years ago
• atc3 / maxquant_linux_guide
  A guide to running MaxQuant in Linux
  ☆32Updated 4 years ago
• cpanse / protViz
  Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics
  ☆11Updated last year
• Vitek-Lab / MSstats
  R package - MSstats
  ☆75Updated this week
• nf-core / quantms
  Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…
  ☆33Updated 8 months ago
• pFindStudio / pFind3
  ☆26Updated 3 weeks ago
• ftwkoopmans / msdap
  MS-DAP: downstream analysis pipeline for quantitative proteomics
  ☆32Updated 3 months ago
• statOmics / MSqRob
  Robust statistical inference for quantitative LC-MS proteomics
  ☆33Updated 2 years ago