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+all.jsonl filter=lfs diff=lfs merge=lfs -text
+sup.jsonl filter=lfs diff=lfs merge=lfs -text
+sup_fp.jsonl filter=lfs diff=lfs merge=lfs -text
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README.md

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+---
+pretty_name: SABmark
+language:
+- en
+tags:
+- protein
+- sequence-alignment
+- structural-biology
+task_categories:
+- other
+configs:
+- config_name: twi
+  description: Twilight subset (<25% identity)
+  data_files:
+    - split: test
+      path: twi.jsonl
+- config_name: sup
+  description: Superfamilies subset
+  data_files:
+    - split: test
+      path: sup.jsonl
+- config_name: twi_fp
+  description: Twilight with added false positives
+  data_files:
+    - split: test
+      path: twi_fp.jsonl
+- config_name: sup_fp
+  description: Superfamilies with added false positives
+  data_files:
+    - split: test
+      path: sup_fp.jsonl
+- config_name: all
+  description: All subsets combined
+  data_files:
+    - split: test
+      path: all.jsonl
+---
+
+# SABmark (Hugging Face Port)
+
+Benchmark for protein sequence alignment under remote homology.
+
+## Subsets
+
+- `sup`: low-to-intermediate identity
+- `twi`: very low identity (<25%)
+- `sup_fp`: superfamilies with added false positives
+- `twi_fp`: twilight with added false positives
+- `all`: union of the above
+
+## Features
+
+- `pair_id`, `group_id`, `set_name`
+- `seq1_id`, `seq2_id`, `seq1`, `seq2`
+- `ref_alignment`: list of index pairs `[[i, j], ...]` (0-based)
+- `percent_identity`, `scop_labels`, `meta`
+
+## Usage
+
+```python
+from datasets import load_dataset
+ds = load_dataset("DeepFoldProtein/SABmark", name="twi", split="test")  
+ex = ds[0]
+print(ex["seq1"], ex["seq2"], ex["ref_alignment"][:5])
+```
+
+## Citation
+
+Please cite:
+
+```bibtex
+@article{VanWalle2004SABmark,
+  title={SABmark---a benchmark for sequence alignment that covers the entire known fold space},
+  author={Van Walle, Ivan and Lasters, Ignace and Wyns, Lode},
+  journal={Bioinformatics},
+  volume={21},
+  number={7},
+  pages={1267--1268},
+  year={2004},
+  publisher={Oxford University Press},
+  DOI = {10.1093/bioinformatics/bth493}
+}
+```
+
+---
+
+### `dataset_infos.json` — stub (optional but nice)
+
+```json
+{
+  "twi": {
+    "description": "SABmark Twilight subset (<25% identity).",
+    "features": {
+      "pair_id": {"dtype": "string", "_type": "Value"},
+      "group_id": {"dtype": "string", "_type": "Value"},
+      "set_name": {"names": ["twi", "sup", "twi_fp", "sup_fp"], "_type": "ClassLabel"},
+      "seq1_id": {"dtype": "string", "_type": "Value"},
+      "seq2_id": {"dtype": "string", "_type": "Value"},
+      "seq1": {"dtype": "string", "_type": "Value"},
+      "seq2": {"dtype": "string", "_type": "Value"},
+      "ref_alignment": {"feature": {"feature": {"dtype": "int32", "_type": "Value"}, "_type": "Sequence"}, "_type": "Sequence"},
+      "percent_identity": {"dtype": "float32", "_type": "Value"},
+      "scop_labels": {"feature": {"dtype": "string", "_type": "Value"}, "_type": "Sequence"},
+      "meta": {"dtype": "string", "_type": "Value"}
+    }
+  }
+}
+```

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