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gyorilab
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variants_ner_benchmark

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Token Classification

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variants_ner_benchmark / README.md

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Update dataset README with export and annotation summaries

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metadata

pretty_name: Annotation Verificator Export
task_categories:
  - token-classification
language:
  - en
size_categories:
  - n<1K

Dataset Card

Description

Entity annotation passages curated with annotation_verificator. This dataset provides passage text plus annotation offsets/lengths and entity types for evaluation.

Data Overview

Field	Value
Repository	gyorilab/variants_ner_benchmark
Generated at (UTC)	2026-03-06T01:17:01.670922+00:00
Exported at (UTC)	2026-03-06T00:13:50.966938+00:00
Source export JSON	data/curated_testing_dataset/testing_hf.json
Total passages	383
Total annotations	1356
Avg annotations / passage	3.540
Splits	test
Requests JSONL	/home/enrique/github/pubtator_dataset/data/curated_testing_dataset/gpt5.2-prompts.jsonl
Responses JSONL	/home/enrique/github/pubtator_dataset/data/curated_testing_dataset/gpt5.2-responses.jsonl

Class Distribution (entity_types)

Entity Type	Count
ProteinMutation	468
SNP	375
DNAMutation	322
CopyNumberVariant	191

Annotation Operations Summary

Total logged actions: 0

Action	Count
(no actions summary provided)	0

Schema

id (int64, -1 when missing)
document_id (string, empty when missing)
passage_offset (int64, -1 when missing)
passage_id (string)
text (string)
offsets (sequence[int64])
lengths (sequence[int64])
entity_types (sequence[classlabel])

Split

test only (no train or validation).