This dashboard makes easy to navigate an MRI volume and to get as an histogram the distribution of its values in a given area. It is just a matter of drawing a path on top of the image. It is realised using Dash. More details available in this post.
To run the dashboard using mri-histogram.py, you need python (3.7) and the following packages:
plotly(4.14.3);dash(1.19.0);dash-core-components(1.15.0);dash-html-components(1.1.2);nibabel(3.0.0);numpy(1.18.4);scipy(1.4.1);scikit-image(0.18.1).
To run the dashboard using mri-histogram.ipynb, you will also need jupyter-dash (0.4.0).
The code was tested on macOS 10.15.7.
Some things to keep in mind:
- as the final mask to compute the histogram is fitted through the
draw.polygon()method fromscikit-image, it is not necessary to draw a perfectly closed path; - Dash now offers an even more powerful way to handle directly tridimensional data:
dash-slicer.