BioimageAIpub - publish Bioimaging data to HuggingFace for AI processing
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Workflow Type: Jupyter

Work-in-progress

BioimageAIpub

A Python library to publish Bioimaging datasets to HuggingFace in AI-ready fashion.

Installation

git clone https://github.com/German-BioImaging/bioimageaipub/bioimageaipub.git
cd bioimageaipub
pip install -r requirements.txt

Usage

BioimageAIpub is supplied as a Python library. See demo/demo.ipynb for a Python notebook demonstrating the usage.

Citation

Acknowledgments

This project was supported by and is attributable to the German Cancer Research Center (DKFZ) the Helmholtz Metadata Collaboration (HMC), an incubator-platform of the Helmholtz Association within the framework of the Information and Data Science strategic initiative.

SEEK ID: https://workflowhub.eu/workflows/2034?version=1

Inputs

ID	Name	Description	Type
list_path	n/a	n/a	File
endpoint_url	n/a	n/a	string?
data_dir	n/a	n/a	string?
file_type	n/a	n/a	string?
train_ratio	n/a	n/a	float?
study_id	n/a	n/a	string?
hf_num_fields	n/a	n/a	int?
omexcavator_path	n/a	n/a	string?
mixed_data_type_columns	n/a	n/a	string?
destination_dataset	n/a	n/a	string