chrBandInciMat {Category}R Documentation

Create an incidence matrix mapping chromosome bands to genes

Description

These functions return a 0/1 incidence matrix with a row for each gene ID with at least one chromosme band annotation and a column for each chromosome band with at least one gene annotation.

Usage

chrBandInciMat(chip, univ = NULL)
makeChrBandInciMat(chrGraph)

Arguments

chip A string giving the annotation source. For example, "hgu133plus2"
univ A vector of gene IDs (these should be Entrez IDs for most annotation sources). The the annotations will be limited to those in the set specified by univ. If univ is NULL (default), then the gene IDs are those found in the annotation data source.
chrGraph A graph object as returned by makeChrBandGraph

Value

A (0/1) incidence matrix with gene IDs as rows and chromosome bands as columns. A 1 in m[i, j] indicates that the geneID rownames(m)[i] is annotated at chromosome band colnames(m)[j].

Author(s)

Seth Falcon

See Also

makeChrBandGraph

Examples

## Not run: 
mm <- chrBandInciMat("hgu95av2")
## End(Not run)

[Package Category version 2.2.3 Index]