| --- |
| license: other |
| |
| tags: |
| - chr |
| - mini dataset |
| language: |
| - en |
| - zh |
| --- |
| <p align="center"> |
| <strong> |
| <span style="font-size: 30px;">Evo2 Dataset</span> |
| </strong> |
| </p> |
| |
| ## Dataset Description |
|
|
| Evo2 Dataset is an Evo2 mini genome dataset adapted for `OneScience/evo2/`. It contains FASTA, compressed FASTA, and merged FASTA files for human chr20, chr21, and chr22, as well as train, validation, and test `.bin/.idx` splits preprocessed with the Byte-Level tokenizer. |
|
|
| ## Supported Tasks |
|
|
| This dataset is not the complete OpenGenome2 dataset and is not intended to reproduce full-scale pretraining. It is intended for preflight checks of the standard Evo2 model repository, FASTA prediction input, and smoke tests for mini training or fine-tuning. |
|
|
| ## Dataset Format and Structure |
|
|
| | Data | Format | Description | |
| |---|---|---| |
| | Raw sequences | FASTA / gzip FASTA | chr20, chr21, chr22, and merged FASTA | |
| | Preprocessed training split | `.bin` + `.idx` | `chr20_21_22_uint8_distinct_byte-level_train` | |
| | Preprocessed validation split | `.bin` + `.idx` | `chr20_21_22_uint8_distinct_byte-level_val` | |
| | Preprocessed test split | `.bin` + `.idx` | `chr20_21_22_uint8_distinct_byte-level_test` | |
| | Checksum manifest | TSV / SHA256 | File names, sizes, and hashes | |
|
|
| The default location within the dataset package is `data_mini/genome_data/`. |
|
|
| ## How to Use the Dataset |
|
|
| ### Files and Download |
|
|
| Download the dataset: |
| ```bash |
| hf download --dataset OneScience-Group/evo2_dataset |
| ``` |
| Model weights must be downloaded separately to validate the model: |
| ```bash |
| hf download --model OneScience-Group/evo2/ |
| ``` |
| ### Data Placement and Validation |
|
|
| Default model data path: |
|
|
| ```text |
| <MODEL_REPO_ROOT>/data/evo2_dataset/data_mini/genome_data/ |
| ``` |
|
|
| Place `data_mini` in the model package: |
|
|
| ```bash |
| mkdir -p <MODEL_REPO_ROOT>/data/evo2_dataset |
| cp -a data_mini <MODEL_REPO_ROOT>/data/evo2_dataset/data_mini |
| ``` |
|
|
| Validation command: |
|
|
| ```bash |
| python scripts/validate_evo2_dataset.py --package-root . --dataset-root data_mini |
| ``` |
|
|
| For a quick structure-only check, add `--skip-sha256`. |
|
|
| ## Official OneScience Information |
|
|
| | Platform | OneScience Main Repository | Skills Repository | |
| |---|---|---| |
| | Gitee | https://gitee.com/onescience-ai/onescience | https://gitee.com/onescience-ai/oneskills | |
| | GitHub | https://github.com/onescience-ai/OneScience | https://github.com/onescience-ai/oneskills | |
|
|
| ## Limitations and License |
|
|
| Repository license: Apache-2.0 |
| Data license: LicenseRef-UCSC-hg38-public-use |
| Data source: UCSC hg38 / GRCh38, chromosomes 20, 21 and 22 |
| Note: Derived bin/idx files follow the source genome data terms. |
|
|
