DOI: 10.5281/zenodo.2533250
title: Simulated dMRI images and ground truth of random fiber phantoms in various configurations

description: This archive contains simulated dMRI images of random fiber phantoms in various configurations created with Fiberfox and other tools available in MITK Diffusion (http://mitk.org/wiki/DiffusionImaging). RandomFibers_Example.png illustrates one of the random fiber configurations used for these phantoms.

If you are using any of these datasets or the tools used to generate them, please don't forget to cite the dataset itself as well as other relevant publications.

Each subfolder contains the following elements:<br>
The simulated dMRI image with b-values and gradient directions: dwi.nii.gz, dwi.bvals, dwi.bvecs<br>
The fibers used for simulation: AllBundles.fib (binary vtk format)<br>
parameters.ffp: Fiberfox simulation parameters<br>
parameters.ffp.bvals: b-value file for Fiberfox simulation<br>
parameters.ffp.bvecs: gradient vector file for Fiberfox simulation<br>
parameters.ffp_VOLUME1.nii.gz: fiber compartment volume fraction map for Fiberfox simulation<br>
The logfile detailing all steps of the generation process of the respective phantom: LOGFILE.json

bundles: folder containing the individual fiber bundles (binary vtk format .fib)<br>
centroids: folder containing the centerlines of each bundle<br>
masks: folder containing the binary envelope of each bundle<br>
peaks: folder containing the principal fiber direction image (peaks) of each bundle

Each subfolder contains the fibers and dMRI simulations with the following fiber specifications:<br>
Phantom 1:<br>
- Number of bundles: 25<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 2:<br>
- Number of bundles: 25<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 3:<br>
- Number of bundles: 25<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 4:<br>
- Number of bundles: 25<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 5:<br>
- Number of bundles: 25<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 6:<br>
- Number of bundles: 25<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 7:<br>
- Number of bundles: 25<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 8:<br>
- Number of bundles: 25<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 9:<br>
- Number of bundles: 50<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 10:<br>
- Number of bundles: 50<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 11:<br>
- Number of bundles: 50<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 12:<br>
- Number of bundles: 50<br>
- Fiber density: 250 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 13:<br>
- Number of bundles: 50<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 14:<br>
- Number of bundles: 50<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 0-30 in degree<br>
- Bundle start radius: 15-30 in mm

Phantom 15:<br>
- Number of bundles: 50<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 5-15 in mm

Phantom 16:<br>
- Number of bundles: 50<br>
- Fiber density: 50-500 streamlines per cm²<br>
- Bundle curvature: 30-60 in degree<br>
- Bundle start radius: 15-30 in mm
description: {"references": ["Neher, Peter F., Frederik B. Laun, Bram Stieltjes, and Klaus H. Maier-Hein. \"Fiberfox: Facilitating the Creation of Realistic White Matter Software Phantoms.\" Magnetic Resonance in Medicine 72, no. 5 (November 2014): 1460\u201370. doi:10.1002/mrm.25045.", "Fritzsche, Klaus H., Peter F. Neher, Ignaz Reicht, Thomas van Bruggen, Caspar Goch, Marco Reisert, Marco Nolden, et al. \"MITK Diffusion Imaging.\" Methods of Information in Medicine 51, no. 5 (2012): 441."]}