If you want to talk about brainVISA as a framework, you can use the references listed here: http://brainvisa.info/doc/axon/en/help/aboutBrainVISA.html.
But, as BrainVISA is hosting various toolboxes, you often need to cite also the research paper(s) describing the algorithm implemented in the toolbox you used.
If you only need to cite Anatomist, the visualization software included in BrainVISA package, you can use the reference mentionned here: http://brainvisa.info/doc/axon/en/help/aboutAnatomist.html.
Questions about BrainVisa usage and installation
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