Open-source toolbox

MuscleMap

Whole-body muscle segmentation and quantitative analysis for large-scale imaging studies.

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Built for researchers, clinicians, and data scientists working with MRI and CT.

Features

Whole-body muscle segmentation

Designed for whole-body and clinical imaging with consistent labelling across muscles and bones, enabling large-scale, multi-region analyses.

View mm_segment

Automated muscle quantification from MRI and CT

Extract muscle-specific metrics such as volumes or or intramuscular fat percentage across multiple MRI contrasts and CT.

View mm_extract_metrics

Three-dimensional spatial parametric mapping

Visualize and calculate the 3D spatial distribution of intramuscular fat in a standardized muscle template.

View mm_register_to_template

Integrated in pipelines

Includes a graphical user interface and a Slicer extension to make MuscleMap easy to run and inspect individual cases for quality control.

View mm_gui View Slicer extension