1. Introduction


The source-code for rBET is available from https://www.nitrc.org/projects/rbet/. It requires that you already have installed and built FSL from source (version 5.01 is recommended, but previous versions should work). If you use the masks generated by rBET, please cite the following in your paper:
T.C. Wood, D.L. Lythgoe and S.C.R. Williams (2013) rBET: Making BET work for Rodent Brains Proceedings of ISMRM Program Number 2706

2. Instructions

• Install FSL from source, following the instructions at: http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FslInstallation/SourceCode
• Download rBET from https://www.nitrc.org/projects/rbet/ and unzip.
• The zip file contains two directories, rbet and meshclass. These are modified versions of the bet2 and meshclass directories from FSL. It is not recommended to unzip into an FSL distribution to prevent overwriting the stock versions.
• Change directory to 'meshclass' and then type 'make'. This will compile a modified version of the FSL meshclass library.
• Change directory to 'rbet' and then type 'make rbet'. This will compile the rbet executable and place it within the rbet directory.
• To enable the "rodent" functionality use the '-R' option. An extra option is '-A', which allows the user to specify the length of the three principal axes relative to the calculated head radius. Other usage is the same as BET.