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medical-imaging

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Jing-He
Jing-He commented Jul 25, 2018

In augmentation, elastic_transform, it only applies a random transform on one input image array. I would think to be used for training, the image and mask pair should be transform in the same way. However, this single-input-image, single-output-image method makes it very inconvenient. Could we deform a list of images (np.arrays) using the same transformation in this method ? Thanks!

romainVala
romainVala commented Nov 3, 2020

🚀 Feature
I notice that by default you choose the minimum as default_pad_value for elastic deformation
whereas the default method is otsu for randomAffine

Motivation
it seems to me more natural to take the min, as noise is expected in the image border (at least for brain, in 5 of the 6 border slices )
no ?
and it makes more sense to have the same default for both transform

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DIPY is the paragon 3D/4D+ imaging library in Python. Contains generic methods for spatial normalization, signal processing, machine learning, statistical analysis and visualization of medical images. Additionally, it contains specialized methods for computational anatomy including diffusion, perfusion and structural imaging.

  • Updated Nov 29, 2020
  • Python

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