greedy: given matrix (columns protein rows peptides), compute minimal...

In prozor: Minimal Protein Set Explaining Peptide Spectrum Matches

Description

given matrix (columns protein rows peptides), compute minimal protein set using greedy algorithm

Usage

greedy(pepprot)

Arguments

pepprot

matrix as returned by prepareMatrix

Value

list of peptide protein assignment

Examples

#library(prozor)

data(protpepmetashort)
colnames(protpepmetashort)
dim(unique(protpepmetashort[,4]))
xx = prepareMatrix(protpepmetashort, peptideID = "peptideModSeq")
dim(xx)
stopifnot(dim(xx)[1] == dim(unique(protpepmetashort[,4]))[1])
es = greedy(xx)
stopifnot(length(unique(names(es))) == dim(unique(protpepmetashort[,4]))[1])

prozor documentation built on Dec. 11, 2021, 9:51 a.m.