The dataset viewer is not available for this dataset.
Error code: ConfigNamesError
Exception: ImportError
Message: To be able to use bigbio/pubtator_central, you need to install the following dependency: bioc.
Please install it using 'pip install bioc' for instance.
Traceback: Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/dataset/config_names.py", line 66, in compute_config_names_response
config_names = get_dataset_config_names(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/inspect.py", line 347, in get_dataset_config_names
dataset_module = dataset_module_factory(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 1914, in dataset_module_factory
raise e1 from None
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 1880, in dataset_module_factory
return HubDatasetModuleFactoryWithScript(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 1504, in get_module
local_imports = _download_additional_modules(
File "/src/services/worker/.venv/lib/python3.9/site-packages/datasets/load.py", line 354, in _download_additional_modules
raise ImportError(
ImportError: To be able to use bigbio/pubtator_central, you need to install the following dependency: bioc.
Please install it using 'pip install bioc' for instance.Need help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
Dataset Card for PubTator Central
PubTator Central (PTC, https://www.ncbi.nlm.nih.gov/research/pubtator/) is a web service for exploring and retrieving bioconcept annotations in full text biomedical articles. PTC provides automated annotations from state-of-the-art text mining systems for genes/proteins, genetic variants, diseases, chemicals, species and cell lines, all available for immediate download. PTC annotates PubMed (30 million abstracts), the PMC Open Access Subset and the Author Manuscript Collection (3 million full text articles). Updated entity identification methods and a disambiguation module based on cutting-edge deep learning techniques provide increased accuracy.
Citation Information
@article{10.1093/nar/gkz389,
title = {{PubTator central: automated concept annotation for biomedical full text articles}},
author = {Wei, Chih-Hsuan and Allot, Alexis and Leaman, Robert and Lu, Zhiyong},
year = 2019,
month = {05},
journal = {Nucleic Acids Research},
volume = 47,
number = {W1},
pages = {W587-W593},
doi = {10.1093/nar/gkz389},
issn = {0305-1048},
url = {https://doi.org/10.1093/nar/gkz389},
eprint = {https://academic.oup.com/nar/article-pdf/47/W1/W587/28880193/gkz389.pdf}
}
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