echoviz-MALOU 0.1.0

Visualisation of 3D mitral valve

Echoviz

Visualization of (3D) echocardiograms in various ways using plotly. This does not include pre-processing of the data from DICOMs to voxel grid.

Installation

$ pip install echoviz-malou This will automatically install needed dependencies.

Usage

All functions allow you to plot inputs, with annotations and/or predictions if you want to. You can show and / or save the produced figure except sliced_sequence and sliced_volume which can only save it.

Several functions are available:

• animated_3d: Interactive 3D plot for all frames in a sequence, saved as HTML
• interactive_3d: Interactive 3D of a voxel grid, saved as HTML
• plot_slice: 2D slice of a voxel grid, saved as PNG
• sliced_sequence: 2D slice for all frames in a sequence, saved as GIF
• sliced_volume: All 2D slices in one voxel grid, saved as GIF
• static_3d: Screenshot of the interactive 3D plot in default view, saved as PNG

All functions expect to receive inputs, annotations/labels and predictions as either VoxelGrid or list/dictionary of VoxelGrid.

Examples

See tests/test.py and tests/test.ipynb.

NB: To run the test script and notebook, you'll need to install the aditional packages: h5py, jupyterlab, jupyter-dash.