tool.translate: Translate gene symbols

In Mergeomics: Integrative network analysis of omics data

Description

tool.translate converts the symbols given in the list from into the list to. e.g. we can translate human gene symbols into the mouse orthologs (or vice versa) if the symbol mapping file is provided.

Usage

tool.translate(words, from, to)

Arguments

words	translation table including words (i.e. gene symbols) that will be translated
from	a list denoting the words will be translated from which symbols
to	a list denoting the words will be translated to which symbols

Value

words

translated table (words)

Author(s)

Ville-Petteri Makinen

Examples

syms <- tool.read(system.file("extdata", "symbols.txt", 
package="Mergeomics"))
syms <- syms[,c("HUMAN", "MOUSE")]
names(syms) <- c("FROM", "TO")
moddata <- tool.read(system.file("extdata", 
"modules.mousecoexpr.liver.human.txt", package="Mergeomics"))
moddata$NODE <- moddata$GENE
moddata$NODE <- tool.translate(words=moddata$NODE, from=syms$FROM, 
to=syms$TO)

Mergeomics documentation built on Nov. 8, 2020, 6:58 p.m.