Load MutGlyph's scored gene-body annotation track

Loads the offline, assembly-specific gene-body resource prepared from UCSC RefSeq and NCBI annotations. Coordinates come from UCSC RefSeq refGene records mapped through ncbiRefSeqLink; symbols come from NCBI gene_info. The score is a popularity score counting unique GeneID–PubMed pairs in NCBI GeneRIF generifs_basic. It is used only to prioritize labels, not as a measure of biological importance.

Usage

mutglyph_gene_annotations(ref.build = "hg19")

Arguments

ref.build

Reference assembly: "hg18", "hg19", or "hg38".

Value

A GenomicRanges::GRanges object with symbol, gene_id, and score metadata columns.

Examples

if (requireNamespace("GenomicRanges", quietly = TRUE) &&
    requireNamespace("GenomeInfoDb", quietly = TRUE)) {
  genes <- mutglyph_gene_annotations("hg19")
  genes[genes$symbol %in% c("TP53", "PIK3CA")]
}
#> GRanges object with 2 ranges and 3 metadata columns:
#>       seqnames              ranges strand |      symbol     gene_id     score
#>          <Rle>           <IRanges>  <Rle> | <character> <character> <numeric>
#>   [1]     chr3 178866145-178957881      + |      PIK3CA        5290      1501
#>   [2]    chr17     7571720-7590868      - |        TP53        7157      9983
#>   -------
#>   seqinfo: 24 sequences from hg19 genome; no seqlengths