README.md

PIE Dataset Card for "DrugProt"

This is a PyTorch-IE wrapper for the DrugProt Huggingface dataset loading script.

Data Schema

There are two versions of the dataset supported, drugprot_source and drugprot_bigbio_kb.

DrugprotDocument for drugprot_source

defines following fields:

• text (str)
• id (str, optional)
• metadata (dictionary, optional)
• title (str, optional)
• abstract (str, optional)

and the following annotation layers:

• entities (annotation type: LabeledSpan, target: text)
• relations (annotation type: BinaryRelation, target: entities)

DrugprotBigbioDocument for drugprot_bigbio_kb

defines following fields:

• text (str)
• id (str, optional)
• metadata (dictionary, optional)

and the following annotation layers:

• passages (annotation type: LabeledSpan, target: text)
• entities (annotation type: LabeledSpan, target: text)
• relations (annotation type: BinaryRelation, target: entities)

See here for the annotation type definitions.

Document Converters

The dataset provides predefined document converters for the following target document types:

• pie_modules.documents.TextDocumentWithLabeledSpansAndBinaryRelations for DrugprotDocument
• pie_modules.documents.TextDocumentWithLabeledSpansBinaryRelationsAndLabeledPartitions for DrugprotBigbioDocument

See here for the document type definitions.