Hifuku, meaning 'sural' or 'saphenous' in Japanese, is an open-source machine learning-based software designed for Whole slide Morphometric Analysis in human sural nerve biopsies.
Clone the Hifuku GitHub repository:
git clone https://github.com/onnonuro/hifuku.gitGoogle Colab is the easiest way to try out Hifuku with GPU support, especially for clinicians and pathologists who are unfamiliar with programming or do not have a local Python environment.
To get started:
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Download tutoial.ipynb: Download tutoial.ipynb.
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Upload tutoial.ipynb to your Google Drive: Upload the file to your Google Drive.
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Open tutoial.ipynb with Google Colab: Sign in Google Colab and open tutoial.ipynb with it.
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Run Hifuku: Follow the instructions in the Jupyter Notebook tutorial.
*You need a google account and sign in to Google colab.
Hifuku was tested in the following Google Clolab environment on November 21, 2023.
Python (3.10.12), torch (2.1.0+cu118), torchvision (0.16.0+cu118), torchmetrics (1.2.0), pytorch-lightning (2.1.2), segmentation-models-pytorch (0.3.3), timm (0.9.2), opencv-python (4.8.0.76), albumentations (1.3.1)
Ono D et al. Automated Whole slide morphometrics of sural nerve biopsy using machine learning Neuropathol Appl Neurobiol. 2024;50:e12967. doi:10.1111/nan.12967