concatenate_by_features: Concatenate MSnSet Objects by Features

In vladpetyuk/vp.misc: Miscellaneous functions used by Vlad Petyuk for proteomics data analysis

Description

Combines MSnset objects by concatenating features. Samples must be the same and maintained the same. Pheno data also must be the same.

Usage

concatenate_by_features(..., tags = NULL)

Arguments

...	MSnSet objects
tags	vector of characters attached to feature names of corresponding MSnSet objects

Value

MSnSet object with concatenated features

See Also

combine and combine

Examples

data(srm_msnset)
dim(msnset)
featureNames(msnset)
msnset3 <- msnset2 <- msnset
# Z-score transform
exprs(msnset2) <- sweep(exprs(msnset2), 1, apply(exprs(msnset2), 1, sd), '/')
# retaining just the sign
exprs(msnset3) <- ifelse(exprs(msnset3) > 0, 1, -1)
m <- concatenate_by_features(msnset, msnset2, msnset3,
                             tags=c("_ori","_zsc","_sgn"))
dim(m)
featureNames(m)

vladpetyuk/vp.misc documentation built on June 25, 2021, 6:35 a.m.