Viewer widget

[kbressem]

Implementing a simple DICOM viewer as iPython Widget.

Mentioned in #20

Motivation

Currently, the 3D volumes were displayed as multiple tiles in a mosaic style. But this is not how a radiologist looks at images. Instead, radiologists view images as a scrollable stack of 2D slices.

Solution

iPywidgets allows rendering one stack of image slices into a scrollable widget.

With the left lower slider, one can scroll through the image stack; with the upper slider, it is possible to apply windowing to the images. If a segmentation mask is passed together with the image, it can be overlayed to the image. With the lower right button, the mask overlay can be toggled on or off.

This simple DICOM viewer is now used as a replacement for the show_batch_3d function.

Additionally, another viewer version gives more details on the pixel/voxel distribution in the image. This could be useful for visualizing DICOM images while preprocessing (normalizing, bias correction).

Files changed

• added 09_widgets.viewer to notebooks
• changed show_batch_3d in 04_dataloaders
• cleaned dev_nbs and nbs folder
• some small style changes

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[jlvahldiek]

Consider to change 'continuous_update' of the range_slider of DicomExplorer to 'False' because otherwise UI seems to be laggy and changes are visualized very slow.