PTM-Module: Code and Intermediate Data for Projection Reliability Diagnostics

This repository contains the complete analysis pipeline and intermediate data for the manuscript "PTM-Module: A Computational Framework for Identifying Metabolite-Driven PTM Enzyme Co-expression Modules and Diagnosing Cross-Dataset Projection Reliability". Contents include: - scripts/: R scripts for NMF module discovery, GMM soft clustering, and NNLS projection reliability diagnostics. - intermediate_data/: NMF W matrix and projection results. - toy_example/: A 200-cell microglia subset for quick pipeline testing. Contact: Meng Zhang ([e-mail])