Document the GTF attributes #1300
Description
Context
Required Gene Annotations should include more details about which GTF attributes are used by CELLxGENE.
It appears that the most descriptive reference for Ensembl GTF is a README for a GTF download such as https://ftp.ensembl.org/pub/release-113/gtf/drosophila_melanogaster/README:
Attributes
The following attributes are available. All attributes are semi-colon
separated pairs of keys and values.
- gene_id: The stable identifier for the gene
- gene_version: The stable identifier version for the gene
- gene_name: The official symbol of this gene
- gene_source: The annotation source for this gene
- gene_biotype: The biotype of this gene
- transcript_id: The stable identifier for this transcript
- transcript_version: The stable identifier version for this transcript
- transcript_name: The symbold for this transcript derived from the gene name
- transcript_source: The annotation source for this transcript
- transcript_biotype: The biotype for this transcript
- exon_id: The stable identifier for this exon
- exon_version: The stable identifier version for this exon
- exon_number: Position of this exon in the transcript
- ccds_id: CCDS identifier linked to this transcript
- protein_id: Stable identifier for this transcript's protein
- protein_version: Stable identifier version for this transcript's protein
- tag: A collection of additional key value tags
- transcript_support_level: Ranking to assess how well a transcript is supported (from 1 to 5)
otherwise, there's Format description of GENCODE GTF
Also see the history.