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Connectome analysis of neuroimaging data is a rapidly expanding field that offers the potential to diagnose, characterize, and predict neurological disease. Animal models provide insight into biological mechanisms that underpin disease, but connectivity approaches are currently lagging in the rodent. Methods: We present a pipeline adapted for structural and functional connectivity analysis of the mouse brain, and we tested it in a mouse model of vascular dementia. Results: We observed lacunardoi:10.1161/strokeaha.121.036997 pmid:35105183 pmcid:PMC9022688 fatcat:2anhrq6xrvfppngfdekps7krwa