Bundled Shennong Gene Annotations — shennong_gene

A package-owned snapshot of gene-level annotations parsed from the GENCODE human GRCh38 v48 and mouse GRCm39 vM37 primary-assembly GTF files.

Usage

shennong_gene_annotations

A data frame with one row per gene and the following columns:

species: Species label used by Shennong.
release: GENCODE release identifier.
seqname: Sequence or chromosome name from the GTF.
source: Annotation source from the GTF.
start: 1-based gene start coordinate.
end: 1-based gene end coordinate.
strand: Gene strand.
gene_id: Original GENCODE gene identifier, including version suffix when present.
gene_id_base: Version-stripped GENCODE gene identifier.
gene_name: Gene symbol from the GTF.
gene_type: GENCODE gene biotype.
gene_status: Optional GTF gene_status attribute.
gene_source: Optional GTF gene_source attribute.
level: Optional GENCODE annotation level.
gene_class: Shennong coarse classification used by gene filtering helpers.

Built from local GENCODE sources via data-raw/build_shennong_gene_annotations.R.