---
title: fungi-its-barcodes
canonical_url: "https://www.modelscope.cn/datasets/zhangtaolab/fungi-its-barcodes"
md_url: "https://www.modelscope.cn/datasets/zhangtaolab/fungi-its-barcodes.md"
repository: zhangtaolab/fungi-its-barcodes
last_updated: 2026-09-17
license: cc-by-nc-4.0
storage_size: "3.5 GB"
downloads: 0
stars: 0
---

# fungi-its-barcodes

> fungi-its-barcodes - zhangtaolab 在 ModelScope 开源的数据集。Fungal internal transcribed spacer (ITS) reference sequences for 6-level taxonomic classification (phylum → class → order → family → genus → species), in the UNITE convention.

zhangtaolab/fungi-its-barcodes 是 ModelScope 魔搭社区上的数据集，存储大小 3.5 GB，采用 cc-by-nc-4.0 许可。

- **Repository**: zhangtaolab/fungi-its-barcodes
- **License**: cc-by-nc-4.0
- **Storage size**: 3.5 GB
- **Downloads**: 0
- **Stars**: 0
- **Last updated**: 2026-09-17

Source: https://www.modelscope.cn/datasets/zhangtaolab/fungi-its-barcodes

---

# fungi-its-barcodes

**Fungal internal transcribed spacer (ITS) reference sequences for 6-level taxonomic classification** (phylum → class → order → family → genus → species), in the UNITE convention.

## Files

| File | Sequences | Purpose |
|---|---:|---|
| `trainset.fasta` | ~1.5 M | Training references |
| `trainset_valid.fasta` | — | Validation split |
| `test1.fasta` | 4,439 | Test 1 — Yeast-enriched |
| `test2.fasta` | 11,619 | Test 2 — Filamentous fungi |
| `test3.fasta` | 367,337 | Test 3 — large-scale benchmark |
| `top50.fasta` | 2,024 | Demo subset |

## Format

FASTA headers encode the full taxonomic path; unknown ranks are marked `?`:

```
>KY106088|k__Fungi;p__Ascomycota;c__Saccharomycetes;o__Saccharomycetales;f__Saccharomycetaceae;g__Zygotorulaspora;s__Zygotorulaspora_mrakii|SH1312607.09FU
```

## Class counts (trainset)

phylum 18 · class 70 · order 231 · family 791 · genus 3,695 · species 14,742

## Source

Reference sequences originate from the **UNITE + INSD dataset for Fungi** (Abarenkov et al. 2023, PlutoF, [doi:10.15156/bio/2938065](https://doi.org/10.15156/bio/2938065)). The train/validation/test partition and the UNITE-style taxonomic headers follow the **MyCoAI** data release (Romeijn et al. 2024, *Molecular Ecology Resources*, [doi:10.1111/1755-0998.14006](https://doi.org/10.1111/1755-0998.14006); [github.com/MycoAI/MyCoAI](https://github.com/MycoAI/MyCoAI)).

If you use this dataset, please cite both sources above.

## Usage

Fine-tuned model: [FungiHelixSeek-Taxonomy](https://huggingface.co/zhangtaolab/FungiHelixSeek-Taxonomy) — species accuracy **70.8%** on the filamentous test set (`test2.fasta`, cleanly-labelled reference subset).

```bash
python scripts/species_classification/predict.py \
    --model_path models/FungiHelixSeek-Taxonomy \
    --input_fasta test2.fasta \
    --output predictions.csv
```

Training recipe and full metrics: [scripts/species_classification on GitHub](https://github.com/zhangtaolab/FungiHelixSeek/blob/main/scripts/species_classification/README.md).

## License

CC-BY-NC 4.0 (research use; contact authors for commercial licensing).