README.md

In Vitek-Lab/SharedPeptidesExplorer: Weighted Protein-Level Summarization for Protein Clusters

MSstatsWeightedSummary: Weighted Protein-Level Summarization for Protein Clusters

Installation:

if (!require(devtools)) {
    install.packages("devtools")
}
devtools::install_github("Vitek-Lab/MSstatsWeightedSummary")

Getting help:

Vignette online

?getWeightedProteinSummary
?normalizeSharedPeptides
?addClusterMembership
vignette(package = "MSstatsWeightedSummary")

Major functionalities:

• normalizeSharedPeptides: feature-level data MSstatsTMT normalization that accounts for shared peptides
• addClusterMembership: identification of clusters of proteins that share peptides (connected components of peptide-protein graph)
• getWeightedSummary: protein-level summarization of feature-level data. Performed separately for each cluster of proteins and each run. Input and output compatible with MSstatsTMT workflow for analysis of mass spectrometry proteomics data with isobaric labeling.

How to cite

TBA.

Vitek-Lab/SharedPeptidesExplorer documentation built on April 14, 2025, 1:45 p.m.