MetaProClust-MS1: Gut microbiome metaproteomics clustering using rapid MS1 profiling https://www.biorxiv.org/content/10.1101/2021.03.31.437863v1
MPC-MS1 is presented with example data through a series of R notebooks that can be run through RStudio. The code can be run through an R notebook with a user's own data, or can be customized using modular scripts.
The R notebooks include all relevent code with R scripts and calls for Python programs using the data from our manuscript. The code for all figures is also included.
Command line scripts called by R notebooks can be found in bin/. This also includes two Python virtual environments required for PRECISE ICA matrix decomposition and k-medoid clustering.