makeChrBandGraph: Create a graph representing chromosome band annotation data
In Category: Category Analysis

Description Usage Arguments Details Value Author(s) Examples

This function returns a graph object representing the nested structure of chromosome bands (also known as cytogenetic bands). The nodes of the graph are band identifiers. Each node has a geneIds node attribute that lists the gene IDs that are annotated at the band (the gene IDs will be Entrez IDs in most cases).

1	makeChrBandGraph(chip, univ = NULL)

`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 annotations attached to the graph will be limited to those specified by `univ`. If `univ` is `NULL` (default), then the gene IDs are those found in the annotation data source.

This function parses the data stored in the <chip>MAP map from the appropriate annotation data package. Although cytogenetic bands are observed in all organisms, currently, only human and mouse band nomenclatures are supported.

A graph-class instance. The graph will be a tree and the root node is labeled for the organism.

Seth Falcon