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Datasets:
axiong
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pmc_oa

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The dataset viewer is not available for this dataset.
Cannot get the config names for the dataset.
Error code:   ConfigNamesError
Exception:    ImportError
Message:      To be able to use axiong/pmc_oa, you need to install the following dependency: jsonlines.
Please install it using 'pip install jsonlines' 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 axiong/pmc_oa, you need to install the following dependency: jsonlines.
              Please install it using 'pip install jsonlines' for instance.

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PMC-OA Dataset

News: We have released the PMC-OA dataset. You can choose the subset specifically.

P.S. There's something wrong with the huggingface dataset viewer when the dataset scale gets large. So we sample a subset of it to visualize it directly on web. Click PMC-OA-Demo to view it.

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Model Zoo

Check it out if you want to load model pretrained on PMC-OA directly.

We plan to release more models pretrained on PMC-OA. Feel free to reach us if the model you want is not included in model zoo for now. Also, we express our thanks to the help from the community.

Model Link Provider
ViT-L-14 https://huggingface.co/ryanyip7777/pmc_vit_l_14 @ryanyip7777

Daraset Structure

PMC-OA (seperated images, separated caption).

  • images.zip: images folder
  • pmc_oa.jsonl: dataset file of pmc-oa
  • pmc_oa_beta.jsonl: dataset file of pmc-oa-beta

- train.jsonl: metafile of train set - valid.jsonl: metafile of valid set - test.jsonl: metafile of test set

The difference between PMC-OA & PMC-OA-Beta lies in the methods of processing captions. In PMC-OA, we utilize ChatGPT to help us divide compound captions into seperate ones. While PMC-OA-Beta keeps all the compound ones without division.

Sample

A row in pmc_oa.jsonl is shown bellow,

{
    "image": "PMC212319_Fig3_4.jpg",
    "caption": "A. Real time image of the translocation of ARF1-GFP to the plasma membrane ...",
}

Explanation to each key

  • image: path to the image
  • caption: corresponding to the image
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