Datasets:
Add README with subset configs
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README.md
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---
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configs:
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- config_name: eukaryote_generator
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data_files:
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- split: train
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path: eukaryote_generator/**/*.parquet
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- config_name: mrna_evo2
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data_files:
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- split: train
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path: mrna_evo2/*.parquet
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- config_name: mrna_splice_evo2
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data_files:
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- split: train
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path: mrna_splice_evo2/*.parquet
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- config_name: prokaryote_evo2
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data_files:
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- split: train
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path: prokaryote_evo2/*.parquet
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---
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# Carbon pretraining corpus
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Private aggregation of the four sources used for Carbon pure-DNA pretraining,
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all stored as parquet for direct `load_dataset` access.
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## Subsets
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| Subset | Source | Description |
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|---|---|---|
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| `eukaryote_generator` | [GenerTeam/pretrain_data_eukaryote](https://huggingface.co/datasets/GenerTeam/pretrain_data_eukaryote) | Eukaryote DNA, sharded by species (`fungi/`, `plants/`, `protozoa/`, `vertebrate_mammalian/`, ...) |
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| `mrna_evo2` | [arcinstitute/opengenome2 / mrna](https://huggingface.co/datasets/arcinstitute/opengenome2/tree/main/json/pretraining_or_both_phases/mrna) | mRNA sequences, train chunks only |
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| `mrna_splice_evo2` | [arcinstitute/opengenome2 / mrna_splice_promoter](https://huggingface.co/datasets/arcinstitute/opengenome2/tree/main/json/pretraining_or_both_phases/mrna_splice_promoter) | mRNA + splice + promoter, train chunks only |
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| `prokaryote_evo2` | [arcinstitute/opengenome2 / gtdb_v220_imgpr](https://huggingface.co/datasets/arcinstitute/opengenome2/tree/main/json/pretraining_or_both_phases/gtdb_v220_imgpr) | Prokaryote (GTDB v220 + IMG/PR), train chunks only |
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Test splits from opengenome2 are not included (this is a pretraining corpus).
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## Usage
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```python
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from datasets import load_dataset
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# pick any subset
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ds = load_dataset("hf-carbon/carbon-pretraining-corpus", "mrna_evo2", split="train", streaming=True)
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print(next(iter(ds)))
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```
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## License
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Defer to upstream sources:
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- GenerTeam/pretrain_data_eukaryote — see upstream repo.
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- arcinstitute/opengenome2 — see upstream repo.
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