bio-genome-intervals-gtf-gff-handling
Installation
SKILL.md
GTF/GFF Handling
GTF and GFF3 are standard gene annotation formats. Both use 1-based coordinates.
Format Comparison
| Feature | GTF | GFF3 |
|---|---|---|
| Coordinate system | 1-based, inclusive | 1-based, inclusive |
| Hierarchy | Implicit (gene_id, transcript_id) | Explicit (Parent attribute) |
| Attribute format | key "value"; | key=value; |
| Comments | # | # |
| Fasta sequences | Not standard | ##FASTA directive |