# Robust Skeletonization for Plant Root Structure Reconstruction from MRI

arXiv: https://arxiv.org/abs/2010.14440 · HTML: https://mlsanity.com/paper/2010.14440/

## Key facts

- Cited by 1 papers in the map (data through 14 Oct 2026).
- First posted on arXiv 27 Oct 2020.

## Built on by (most cited first, 1 of 1)

- [Lincoln's Annotated Spatio-Temporal Strawberry Dataset (LAST-Straw)](https://mlsanity.com/paper/2403.00566/) (2024)

## Abstract (arXiv)

Structural reconstruction of plant roots from MRI is challenging, because of low resolution and low signal-to-noise ratio of the 3D measurements which may lead to disconnectivities and wrongly connected roots. We propose a two-stage approach for this task. The first stage is based on semantic root vs. soil segmentation and finds lowest-cost paths from any root voxel to the shoot. The second stage takes the largest fully connected component generated in the first stage and uses 3D skeletonization to extract a graph structure. We evaluate our method on 22 MRI scans and compare to human expert reconstructions.