paolomanlapaz/rispice-1000bp

RiSPICE LoRA Adapter (1000 bp)

This repository provides the 1000 bp LoRA adapter for RiSPICE (Rice SNP Prioritization Integrating Chromatin Effects), fine-tuned on top of DNABERT-2-117M for multi-label prediction of rice chromatin features from DNA sequences.

Model Summary

• Method: RiSPICE (Rice SNP Prioritization Integrating Chromatin Effects)
• Base Model: paolomanlapaz/rispice-base
• Adapter Type: PEFT / LoRA
• Sequence Length: 1000 bp
• Task: Multi-label Chromatin Feature Prediction (num_labels=12)

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Feature Order

The model outputs logits/probabilities corresponding to the following 12 chromatin features in exact order (Index 0 to 11):

Index	Feature
0	ATAC-Seq
1	H3K4ac
2	H3K4me2
3	H3K4me3
4	H3K9ac
5	H3K9me1
6	H3K23ac
7	H3K27ac
8	H3K27me3
9	H3K36me3
10	H4K12ac
11	H4K16ac

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Usage & Pipeline Code

For dataset preprocessing, model loading, and batch inference scripts, please refer to our GitHub repository:
🔗 bioinfodlsu/rispice