symbols2indices: Convert Gene Set Symbols to Indices
In richierocks/limma2: Linear Models for Microarray Data

Description Usage Arguments Details Value Author(s) See Also

Make a list of gene set symbols into a list of gene sets indices.

1	symbols2indices(gene.sets, symbols, remove.empty=TRUE)

`gene.sets`	list of character vectors, each vector containing the symbols for a set of genes.
`symbols`	character vector of gene symbols.
`remove.empty`	logical, should sets of size zero be removed from the output?

This function used to create input for romer function. Typically, symbols is the vector of symbols of genes on a microarray, and gene.sets is obtained constructed from a database of gene sets, for example a representation of the Molecular Signatures Database (MSigDB) downloaded from http://bioinf.wehi.edu.au/software/MSigDB.

list of integer vectors, each vector containing the indices of a gene set in the vector symbols.

Gordon Smyth and Yifang Hu

romer, mroast, camera

richierocks/limma2 documentation built on May 27, 2019, 8:47 a.m.