This repository contains additional vignettes demonstrating secondary features of the PrInCE R package. Because the Bioconductor project requires that all executable code finish running within a strict limit of 5 minutes, these are provided separately from the main package, in order to provide full worked examples and enable interested users to reproduce the results found in our manuscript, "PrInCE: an R/Bioconductor package for protein-protein interaction network inference from co-fractionation mass spectrometry data."
The vignettes included in this repository are as follows:
vignettes/detect_complexes.html: demonstrates the use of the PrInCE functiondetect_complexesto identify significantly co-eluting complexes in mitochondrial and cytosolic CF-MS data [1]vignettes/calculate_autocorrelation.html: demonstrates the use of the PrInCE functioncalculate_autocorrelationto identify proteins with 'rewired' protein-protein interactions after RNAse treatment [2]
[1] Scott, N.E. et al. Mol. Syst. Biol. 13, 906 (2017). [2] Mallam, A. et al. Cell Rep. 29, 1351-1368 (2019).