Add 8192 bp allele localization config metadata

README.md

@@ -12,6 +12,10 @@ configs:
   data_files:
   - split: train
     path: pathogenic_pairwise/train-*
+- config_name: pairwise_allele_localization_8192
+  data_files:
+  - split: train
+    path: pairwise_allele_localization_8192/train-*
 - config_name: all_tasks
   data_files:
   - split: train
@@ -27,7 +31,8 @@ VEPQA is a supervised fine-tuning dataset for variant-effect-prediction style qu
 - `binary`: binary clinical-significance classification.
 - `clinvar_levels`: finer-grained ClinVar clinical-significance classification.
 - `pathogenic_pairwise`: reference-vs-alternate sequence preference for pathogenic or likely pathogenic variants.
-- `all_tasks`: concatenation of the three task configs.
+- `pairwise_allele_localization_8192`: 8,192 bp control task over the same source rows as `pathogenic_pairwise`; asks which allele appears in each sequence at the final variant position, without asking for pathogenicity.
+- `all_tasks`: concatenation of the original three task configs. This config is intentionally unchanged by the localization-task addition.
 
 ## Row Format
 
@@ -99,7 +104,7 @@ Dataset-wide provenance summary:
 
 Every prompt sequence is 8,192 bp long and is wrapped in closed DNA tags, for example `<dna>...</dna>`. The variant is placed at the final base of the sequence context: `variant_index_0based = 8191`, equivalent to `variant_position_1based = 8192`.
 
-The `all_tasks` config has 6,000 task rows but 4,000 unique variant keys. The `binary` and `clinvar_levels` configs are two views of the same 2,000 clinical-classification variants; `pathogenic_pairwise` contributes 2,000 additional pathogenic or likely pathogenic variants.
+The `all_tasks` config has 6,000 task rows but 4,000 unique variant keys. The `binary` and `clinvar_levels` configs are two views of the same 2,000 clinical-classification variants; `pathogenic_pairwise` contributes 2,000 additional pathogenic or likely pathogenic variants. The `pairwise_allele_localization_8192` config is a separate diagnostic view over the same 2,000 source rows as `pathogenic_pairwise` and is not included in `all_tasks`.
 
 Unique variant chromosome distribution across `all_tasks`:
 
@@ -161,6 +166,50 @@ Task-row chromosome distribution in `all_tasks`:
 }
 ```
 
+### Pairwise Allele Localization 8192
+
+The `pairwise_allele_localization_8192` config contains 2,000 rows using the same ClinVar source variants as `pathogenic_pairwise`. It presents the two 8,192 bp DNA sequences and asks the model to identify which allele appears in each sequence at position 8192. This is a sequence-comparison / allele-binding diagnostic, not a pathogenicity classification task.
+
+Label distribution:
+
+```json
+{
+  "Likely pathogenic": 659,
+  "Pathogenic": 670,
+  "Pathogenic/Likely pathogenic": 671
+}
+```
+
+Chromosome distribution:
+
+```json
+{
+  "1": 178,
+  "2": 219,
+  "3": 103,
+  "4": 40,
+  "5": 89,
+  "6": 84,
+  "7": 102,
+  "8": 49,
+  "9": 70,
+  "10": 66,
+  "11": 136,
+  "12": 108,
+  "13": 35,
+  "14": 38,
+  "15": 80,
+  "16": 86,
+  "17": 177,
+  "18": 20,
+  "19": 105,
+  "20": 33,
+  "21": 16,
+  "22": 32,
+  "X": 134
+}
+```
+
 ## ClinVar Filtering
 
 Rows were retained from ClinVar only if they met all of the following criteria: