Slice Display is a MATLAB toolbox for visualizing fMRI data. Besides standard fMRI displays, it can make dual-coded images (simultaneous display of contrast estimate and unthreshold t-statistic maps). Data visualizations can be entirely scripted, so that generating figures is easy and reproducible.
Typical visualization of fMRI data - thresholded t-map
Alternative visualization of fMRI data - dual-coded map
- Simultaneous display of effect size (color-coded) and unthresholded inferential statistics (opacity-coded)
- Contours distinguish statistically significant and non-significant voxels
- Show more and hide less, while allowing for spatial localization
- MATLAB R2015a or later
- MATLAB Statistics Toolbox
- SPM by the Wellcome Trust Centre for Neuroimaging at UCL
- Panel by Ben Mitch
You can either download the code as a ZIP file or you can clone the code:
To download the code:
- Go to the Slice Display repository on GitHub.
- Select 'Download ZIP' from the green 'Clone or download' button.
To clone the code, run the following command on the command line (require Git to be installed):
git clone https://github.com/bramzandbelt/slice_display.git
See the example scripts in the directory 'examples'.
- van Lieshout, L. L., Vandenbroucke, A. R., Müller, N. C., Cools, R., & de Lange, F. P. (2018). Induction and relief of curiosity elicit parietal and frontal activity. Journal of Neuroscience, 38(10), 2579-2588.
- Richter, D., Ekman, M., & de Lange, F. P. (2018). Suppressed sensory response to predictable object stimuli throughout the ventral visual stream. Journal of Neuroscience, 38(34), 7452-7461.
- Ai, H., Xin, Y., Luo, Y., Gu, R., & Xu, P. (2019). Volume of motor area predicts motor impulsivity. European Journal of Neuroscience.
If you intend to publish figures obtained with this code, cite it as follows:
- Zandbelt, Bram (2017): Slice Display. figshare. 10.6084/m9.figshare.4742866.
If you intend to publish figures using dual-coded design, also cite the following paper:
- Allen, E. A., Erhardt, E. B., & Calhoun, V. D. (2012). Data Visualization in the Neurosciences: Overcoming the Curse of Dimensionality. Neuron, 74(4), 603–608. https://doi.org/10.1016/j.neuron.2012.05.001
Version 0.1 - March 2017
E-mail: bramzandbelt@gmail.com
Slice Display was inspired by and builds on the slice overlay toolbox by Matthew Brett, available through SPM.
Allen, E. A., Erhardt, E. B., & Calhoun, V. D. (2012). Data Visualization in the Neurosciences: Overcoming the Curse of Dimensionality. Neuron, 74(4), 603–608. https://doi.org/10.1016/j.neuron.2012.05.001