Datasets:

bio-datasets
/

re-medical-annotations

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The dataset viewer is not available for this dataset.

The dataset tries to import a module that is not installed.

Error code:   DatasetModuleNotInstalledError
Exception:    ImportError
Message:      To be able to use bio-datasets/re-medical-annotations, you need to install the following dependency: cassis.
Please install it using 'pip install cassis' for instance.
Traceback:    Traceback (most recent call last):
                File "/src/services/worker/src/worker/job_runners/dataset/config_names.py", line 55, in compute_config_names_response
                  for config in sorted(get_dataset_config_names(path=dataset, token=hf_token))
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/inspect.py", line 351, in get_dataset_config_names
                  dataset_module = dataset_module_factory(
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 1512, in dataset_module_factory
                  raise e1 from None
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 1481, in dataset_module_factory
                  return HubDatasetModuleFactoryWithScript(
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 1202, in get_module
                  local_imports = _download_additional_modules(
                File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 294, in _download_additional_modules
                  raise ImportError(
              ImportError: To be able to use bio-datasets/re-medical-annotations, you need to install the following dependency: cassis.
              Please install it using 'pip install cassis' for instance.

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Dataset Card for re-medical-annotations

Dataset Description

Dataset Summary

HuggingFace Dataset from the Inception Medical Annotations project.

This dataset can be used locally with any archive downloaded from Inception that contains relation annotations.

Loading this dataset requires dkpro-cassis>=0.7.2.

Example: load the dataset from the "RE Temporality POC"

import datasets

ds = datasets.load_dataset(
    "bio-datasets/re-medical-annotations",
    data_dir=<Inception Archive path>,
    labels = ["bound"],
)

Dataset Structure

Data Fields

text (str): text of the sentence
subj_start (int): start char of the relation subject mention
subj_end (int): end char of the relation subject mention, exclusive
subj_type (str): NER label of the relation subject
obj_start (int): start char of the relation object mention
obj_end (int): end char of the relation object mention, exclusive
obj_type (str): NER label of the relation object
relation (str): the relation label of this instance

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