schuhschuh / slice_dice

Computes the mean Dice similarity index for each slice between masks in NIFTII, NRRD, GIPL formats

Dice Similarity Index for 3D medical image slices

Finds the Sorensen dice of two 3D (medical) image binary masks.

The slices can be defined by the user using the --x, --y or, --z switches

However, it requires post-processing for finalising the atrial wall segmentation. The following repository contains two separate tools that accomplish these post-processing tasks.

Usage

The usage for the first tool combinmask is:

./slice_dice -i1 <img1> -i2 <img2> -o <output dice txt> -txt <append text> --x --y --z <along which direction>

This program outputs the mean and standard deviation of dice in each slice along the specified X, Y, Z direction.

Author

Dr. Rashed Karim 
Department of Biomedical Engineering 
King's College London