BrainSlicer

BrainSlicer is a MATLAB-based visualization tool for volumetric brain data. Its main purpose is to produce publication-level figures.

BrainSlicer main functionalities include:

• possibility of overlaying multiple images with tunable opacity.
• thresholding and clusterization of each layer
• visualize colorbar for each desired layer
• handy visualization of p-value maps as (1-p)
• ~ 100 colormaps available (including FSL and brain colours maps)

BrainSlicer is composed of three main programs:

• slicer.m - the main tool, visualizes and prints nifti images.
• slicerCollage.m - combines several images produced by slicer.m in a single figure.
• colormaps.m - shows all the available colormaps and their code for ease of selection.

REQUIREMENTS

BrainSlicer requires:

• SPM
• MATLAB version >= R2014b

EXAMPLES

SlicerDemo.m demostrates the major functionalities of the toolbox using common usage examples.

• Figure showing a t-map and 1-p-map:   
• Figure showing the 10 networks from Smith et al. 2009 (PNAS):   
• Figure showing the 7 networks from Yeo et al. 2011 (J Neurophysiol) parcellated according to Schaefer et al 2018 (Cortex):