tool.translate: Translate gene symbols
In zeynebkurtUCLA/Mergeomics: Integrative network analysis of omics data

Description Usage Arguments Value Author(s) Examples

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.

1	tool.translate(words, from, to)

`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

words

translated table (words)

Ville-Petteri Makinen

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)