merge.MSfiles: merge.MSfiles
In stuchly/MetaMass: Tools for Mass Spectrometry data meta-analysis

Description Usage Arguments Details Value Examples

View source: R/AnnoMass.R

Merges data from several existing MSfiles, impute missing values by 1 and computes number of studies overlapped by the particular protein.

1	merge.MSfiles(MSfiles,,by=1,all=TRUE,sep="\t")

`MSfiles`	character vector; path(s) to the text files with MS data
`by`	positive integer. column index with protein identifier
`all`	logical; merge all proteins (if FALSE only proteins present in all files are merged
`sep`	character; cell separator in text files

one additional column is added - overlap - which says in how many studies the particular protein was detected. The protein is considered detected if if if the value in at least one fraction in the study is greater than 1

invisible data.frame. One line per protein.

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files1<-system.file("extdata",c("Bileck.txt","Thakar.txt","Carvalho.txt","Andreyev.txt","Rodriguez.txt"),package="MetaMass")

res<-merge.MSfiles(files1,output="merged_files.txt")