Human GTF Gene Annotation — gtf

Pre-loaded Ensembl GTF annotation for human genes (GRCh38). This bundled dataset eliminates the need to download from AnnotationHub, enabling offline use and faster loading.

Usage

gtf_human

Format

A data frame containing GTF annotation with the following columns:

seqnames: Chromosome
start: Feature start position
end: Feature end position
width: Feature width in bp
strand: Strand (+ or -)
source: Annotation source
type: Feature type (gene, transcript, exon, CDS, UTR, etc.)
score: Annotation score
phase: CDS phase (0, 1, or 2)
gene_id: Ensembl gene ID
gene_version: Ensembl gene version
gene_name: Gene symbol
gene_source: Gene annotation source
gene_biotype: Gene biotype (protein_coding, lncRNA, etc.)
transcript_id: Ensembl transcript ID
transcript_version: Ensembl transcript version
transcript_name: Transcript name
transcript_source: Transcript annotation source
transcript_biotype: Transcript biotype
transcript_support_level: Transcript support level (TSL)
exon_number: Exon number within the transcript
exon_id: Ensembl exon ID
exon_version: Ensembl exon version
protein_id: Ensembl protein ID
protein_version: Ensembl protein version
ccds_id: CCDS identifier
tag: Feature tag (e.g., basic, Ensembl_canonical)

Source

Ensembl via AnnotationHub (AH110867)

Examples

if (FALSE) { # \dontrun{
  # Load the bundled GTF
  data(gtf_human)

  # Use with PlotGene (no download required)
  data(sample_bed)
  PlotGene(bed = sample_bed, geneID = "GAPDH", gtf = gtf_human)
} # }