MAPAmat {Category}R Documentation

Create an adjacency matrix for MAP

Description

For many organisms cytochrome bands, or MAP positions, can be determined on chromosomes. This function computes an adjacency matrix mapping gene chip identifiers to MAP locations.

Usage

MAPAmat(data, minCount = 5)

Arguments

data The character string naming the data package to use.
minCount The minimum number of genes that must be mapped to retain a position.

Details

All MAP regions with fewer than minCount genes associated with it are dropped. Most genes are mapped to a single MAP region, in the rare cases where there are multiple mappings only the first one is used.

Value

A matrix of zeros and ones (possibly a sparse representation) where rows correspond to MAP regions and columns to probe IDs. A one indicates that the corresponding gene is in the mapped region.
Mapping is based on Entrez gene IDs.

Author(s)

R. Gentleman

See Also

cateGOry, probes2MAP

Examples

 mam <- MAPAmat("hgu95av2", 10) 

[Package Category version 1.4.1 Index]