NOTE: This Cloud- and Windows-based MaxQuant Pipeline is now deprecated.
Instead, please use the Linux version of MaxQuant.
MaxQuant is a quantitative proteomics software package designed for analyzing large-scale mass-spectrometric data sets. This repository contains contains code and documentation explaining how to run MaxQuant manually or automatically via the Center’s cloud based automated pipeline.
If you don’t already have a copy of MaxQuant you can find instructions on how to download and install MaxQuant here: MaxQuant Download and Installation Page.
Manually running a MaxQuant analysis
The documentation availible at the following link will provide you with basic instructions on how to manually run a MaxQuant analysis on your Workstation:
The Center has created an automated MaxQuant pipeline that allows you to submit MaxQuant jobs that will run in the cloud. You simply need to prepare your data and configuration then submit it via one of the Rhino HPC nodes. Documentation on how to use the automated pipeline can be found via the following Link:
MaxQuant Pipeline
DEPRECATION NOTICE
NOTE: This Cloud- and Windows-based MaxQuant Pipeline is now deprecated. Instead, please use the Linux version of MaxQuant.
MaxQuant is a quantitative proteomics software package designed for analyzing large-scale mass-spectrometric data sets. This repository contains contains code and documentation explaining how to run MaxQuant manually or automatically via the Center’s cloud based automated pipeline.
If you don’t already have a copy of MaxQuant you can find instructions on how to download and install MaxQuant here: MaxQuant Download and Installation Page.
Manually running a MaxQuant analysis
The documentation availible at the following link will provide you with basic instructions on how to manually run a MaxQuant analysis on your Workstation:
Manually running a MaxQuant analysis
Running MaxQuant via the automated pipeline
The Center has created an automated MaxQuant pipeline that allows you to submit MaxQuant jobs that will run in the cloud. You simply need to prepare your data and configuration then submit it via one of the Rhino HPC nodes. Documentation on how to use the automated pipeline can be found via the following Link:
Running a MaxQuant analysis via the automated pipeline