datasets
Training and evaluation data, with the modality, task and licence stated up front. Listed live from the Hugging Face Hub.
fungi
Dataset Card for "fungi"
More Information needed
fungi_trait_circus_database
fungi_trait_circus_database
大菌輪「Trait Circus」データセット（統制形質）
最終更新日：2025/09/28
重要：データ形式を大幅に更新しました（v2.0）
Languages
Japanese and English
Please do not use this dataset for academic purposes for the time being. (casual use only)
非専門家が作成したデータセットです。学術目的での使用はご遠慮ください。
更新履歴
2025/09/28 (v2.0) - データ構造を全面改訂、Parquet形式に移行、データ量を約2倍に拡充（約400万件）
2025/08/12 (v1.0) - 初回公開版（約180万件）
概要
Atsushi Nakajima（中島淳志）が個人で運営しているWebサイト大菌輪… See the full description on the dataset page: https://huggingface.co/datasets/Atsushi/fungi_trait_circus_database.fungi_diagnostic_chars_comparison_japanese
fungi_diagnostic_chars_comparison_japanese大菌輪「識別形質まとめ」データセット最終更新日 / Last updated: 2026/8/29（up to R3-14214）
Languages
Japanese
This dataset is available in Japanese only.
概要 / Overview
Atsushi Nakajima（中島淳志）が個人で運営しているWebサイト大菌輪では、数千件以上の菌類分類学論文を「論文3行まとめ」という形で要約および索引付け（インデキシング）した情報を提供しています。その一環として、ある菌と別の菌の「共通する」あるいは「異なる」識別形質 (diagnostic characters) に関する記述を人手で抽出しています。
Daikinrin, a personal website run by Atsushi Nakajima, provides summaries and… See the full description on the dataset page: https://huggingface.co/datasets/Atsushi/fungi_diagnostic_chars_comparison_japanese.fungi_indexed_mycological_papers_japanese
fungi_indexed_mycological_papers_japanese
大菌輪「論文3行まとめ」データセット最終更新日：2026/8/29（R3-14214まで）
Languages
Japanese
This dataset is available in Japanese only.
概要 / Overview
大菌輪は、Atsushi Nakajima（中島淳志）が個人で運営しているWebサイトです。ここでは、数千件以上の菌類分類学論文を「論文3行まとめ」という形で要約および索引付け（インデキシング）した情報を提供しています。
Daikinrin is a personal website operated by Atsushi Nakajima. It provides summaries and indexed information for thousands of mycological taxonomic papers in the form of… See the full description on the dataset page: https://huggingface.co/datasets/Atsushi/fungi_indexed_mycological_papers_japanese.european-flora-fungi-thinking
🌿🍄 European Flora & Fungi Identification Dataset
With Synthetic Thinking Traces for Vision-Language Model Fine-Tuning
A curated dataset of 377 multi-turn conversations covering 39 European plant and mushroom species organized into 14 confusion groups (species commonly mistaken for each other).
🎯 Purpose
This dataset is designed for fine-tuning vision-language models (Gemma 3, LLaVA, Qwen-VL) with thinking traces (<think>...</think>) to perform:
Species… See the full description on the dataset page: https://huggingface.co/datasets/Mightypeacock/european-flora-fungi-thinking.ref_seq_fungidanish-fungi-2024-pairs-800pxfungifutures
Dataset Card for "fungi_futures"
More Information needed
fungi-histone-modifications
fungi-histone-modifications
12 fungal histone-mark binary classification tasks — each subset is a ready-to-use train/dev/test.csv (columns: sequence,label; 500 bp windows) for fine-tuning DNA foundation models.
Subsets (12)
Subset
Source
Description
H3
GUE EMP
Histone H3 bound regions (S. cerevisiae ChIP-chip)
H3K4me1
GUE EMP
H3K4 monomethylation
H3K4me2
GUE EMP
H3K4 dimethylation
H3K4me3
GUE EMP
H3K4 trimethylation (active promoters)
H3K9ac
GUE… See the full description on the dataset page: https://huggingface.co/datasets/zhangtaolab/fungi-histone-modifications.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… See the full description on the dataset page: https://huggingface.co/datasets/zhangtaolab/fungi-its-barcodes.FungiHelixSeek-Anno
FungiHelixSeek-Anno (dataset)
Gene-structure fine-tuning data for FungiHelixSeek-Anno — species-balanced, intron-tilted genomic windows with per-nucleotide BILOU labels (17 tags: O + B/I/L/U × CDS/INTRON/UTR5/UTR3), built from 122 curated fungal genome annotations.
Files
File
Size
Content
train.parquet
873 MB
245k training windows (8,192 bp, species-balanced + intron-weighted)
val.parquet
22 MB
Validation windows
splits/species_split.tsv
—… See the full description on the dataset page: https://huggingface.co/datasets/zhangtaolab/FungiHelixSeek-Anno.fungi-rag-agent-sft-database
Fungi RAG Agent SFT Database
This dataset contains the supervised fine-tuning database used to train the
JacktheLander/smollm2-1.7b-fungi-rag-agent-distill-lora-gguf adapter.
It was built for the project-owned fungi RAG learning system:
JacktheLander/FunghiResearchAgent
The examples teach a small local language model to follow the system's agent contract:
use rag.search for evidence-backed mycology answers,
use safety.review for wild-mushroom edibility, field-identification… See the full description on the dataset page: https://huggingface.co/datasets/JacktheLander/fungi-rag-agent-sft-database.fungi
Dataset Card for "fungi"
More Information needed
fungifutures2
Dataset Card for "fungifutures2"
More Information needed
prompt-fungineer-v2-training-datafungi-id
🍄 Fungi ID Dataset
This dataset contains 2,829 curated images of fungal species, specifically prepared to support the FungiTastic Identification System web application. It provides one representative image per species, optimized for browser-based visual comparison and reference.
🔍 Dataset Purpose
This dataset is not intended for model training. Instead, it is designed to be used alongside the FungiTastic-optimized Swin Transformer model for:
Visual Verification:… See the full description on the dataset page: https://huggingface.co/datasets/meed2000/fungi-id.yolo-edible-fungi-disease-recognition-instance-segmentation
食用菌病害识别实例分割数据集
本数据集为食用菌病害识别实例分割数据集，适用于智慧农业领域的实例分割任务。
适用场景
农业智能化检测与病虫害识别
实例分割模型训练与部署
计算机视觉算法研究
网盘地址
在线下载链接：https://www.data2.cn
在线获取数据集：食用菌病害识别实例分割数据集
访问 https://www.data2.cn 访问 data2.cn 获取下载链接
fungidanish-fungi-2024-pairs-800pxclef_fungi_dtd_for_zero-shotclef_fungi_dtd_for_zero-shot -это датасет для задачи Zero-shot классификации изображений. Он включает изображения из доменов: CUB_200_2011, DTD, FungiCLEF_2022. Каждое изображение снабжено меткой класса.
Особенности
Домен(ы): CUB_200_2011, DTD, FungiCLEF_2022
Количество изображений: 56902
Количество классов: 200 + 47 + 1604
Формат данных: PNG/JPG, CSV-таблица с метками
Тип задачи: Zero-shot классификации изображений
Пример использования
from datasets import load_dataset… See the full description on the dataset page: https://huggingface.co/datasets/ShadowCatLul/clef_fungi_dtd_for_zero-shot.fungi_5_classesfungi_10_classesfungi_20_classesfungi_100_classesFungiExpressions
FungiExpressions
tags: mushrooms, emoji, behavior prediction
Note: This is an AI-generated dataset so its content may be inaccurate or false
Dataset Description:
The 'FungiExpressions' dataset is a collection of textual data that interprets different types of mushrooms through a series of emojis. Each row represents a different mushroom and its associated behavior or characteristic, expressed using emojis. The dataset is useful for training machine learning models that can predict… See the full description on the dataset page: https://huggingface.co/datasets/infinite-dataset-hub/FungiExpressions.fungi_50_classesfungi_250_classesfungi_500_classesfungi_750_classesfungi_1000_classes