Python Package for the downstream analysis of mass-spectrometry-based proteomics data

A Quality Control (QC) pipeline for Proteomics (PTX) results generated by MaxQuant

amica: an interactive and user-friendly web-based platform for the analysis of proteomics data

R package for easy interop between Perseus and R

Package to analyze Mass Spec Data

Integration between Perseus and Python

Enables working with external scripts and tools from within Perseus

Pipeline and Shiny app for the dowstream analysis of quantitative proteomic data

Provides reports for quantitative mass spectrometry data.

Compares PAW and MQ for a 7-channel TMT experiment; compares edgeR to two-sample t-test

Developing mouse lens done with MQ

Pipeline and shiny app for the downstreaming analysis of quantitative proteomic data

Functionality for processing and analysing HeLa data quality control (QC) and maintenance (MNT) samples processed by MaxQuant

R-script to check incorporation level of heavy SILAC amino acids

Queue MaxQuant analysis by saving MaxQuant parameter files in a watch folder.

LabKey Server module for importing MaxQuant results, originated from the Ong lab at UW

Automated Proteomics quality control package

R package that visualizes MaxQuant output of activity-based protein profiling experiments.