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Tinkering with a deep learning approach for nuclei segmentation.

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nuclei_segmentation

This attempts to perform nuclei segmentation of histology images using a Conditional Adversarial Network. It uses tf.keras and eager execution to implement the patch-GAN following the example from the tensorflow team: pix2pix_eager.ipynb

This creates an RGB image where the red channel is 1.0 for all "background" pixels; the blue channel is 1.0 for all "nuclei" pixels; and the green channel is 1.0 for all "boundary" pixels. The boundary pixels attempt to describe vertices of a polyline around each nuclei.

See also: Image-to-Image Translation with Conditional Adversarial Networks

Kumar, et al, A dataset and a technique for generalized nuclear segmentation for computational pathology

U-Net: Convolutional Networks for Biomedical Image Segmentation

Example images illustrating promising results:

image

image

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Tinkering with a deep learning approach for nuclei segmentation.

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