format_to_ref: Format the sample and reference data to match

In LBMC/wormAge: Real Age Prediction from Transcriptome staging On Reference

Format the sample and reference data to match

Description

This function keeps matching gene IDs between the sample and reference data, removing non-matching data.

Usage

format_to_ref(samp, refdata, na.rm = T, verbose = T)

Arguments

samp	the sample gene expression matrix with genes as rows and individuals as columns
refdata	the reference matrix, same format as samp
na.rm	if TRUE (default), rows with NA are removed
verbose	if TRUE (default), prints a summary of initial and resulting gene counts

Value

a list with matching samp and refdata expression matrices as well as an inter.genes character vector with the matching gene IDs.

Examples

X <- matrix(rnorm(50), ncol = 5)
Y <- X
rownames(X) <- paste0('g', 1:10)
rownames(Y) <- paste0('g', 4:13)

Z <- format_to_ref(X,Y)

LBMC/wormAge documentation built on April 6, 2023, 3:52 a.m.