PlantHelixSeek-Anno
Fine-tuned from PlantHelixSeek for gene structure prediction — labels every nucleotide with one of 17 BILOU tags spanning CDS / intron / 5'UTR / 3'UTR / intergenic.
Task
- Type: Token classification (17-class BILOU)
- Base model: PlantHelixSeek (470M)
Label scheme
| Group | Tags |
|---|---|
| intergenic | O |
| CDS | B-CDS I-CDS L-CDS U-CDS |
| Intron | B-INTRON I-INTRON L-INTRON U-INTRON |
| 5'UTR | B-UTR5 I-UTR5 L-UTR5 U-UTR5 |
| 3'UTR | B-UTR3 I-UTR3 L-UTR3 U-UTR3 |
Usage
from transformers import AutoModelForTokenClassification, AutoTokenizer
model = AutoModelForTokenClassification.from_pretrained(
"zhangtaolab/PlantHelixSeek-Anno", trust_remote_code=True
)
tokenizer = AutoTokenizer.from_pretrained(
"zhangtaolab/PlantHelixSeek-Anno", trust_remote_code=True
)
Full genome-wide prediction + GFF3 decoding pipeline: see scripts/gene_annotation/.
License
CC-BY-NC 4.0