RT Journal Article SR Electronic T1 Structural and functional connectivity reconstruction with CATO - A Connectivity Analysis TOolbox JF bioRxiv FD Cold Spring Harbor Laboratory SP 2021.05.31.446012 DO 10.1101/2021.05.31.446012 A1 Siemon C. de Lange A1 Koen Helwegen A1 Martijn P. van den Heuvel YR 2022 UL http://biorxiv.org/content/early/2022/12/02/2021.05.31.446012.abstract AB We describe a Connectivity Analysis TOolbox (CATO) for the reconstruction of structural and functional brain connectivity based on diffusion weighted imaging and resting-state functional MRI data. CATO is a multimodal software package that enables researchers to run end-to-end reconstructions from MRI data to structural and functional connectome maps, customize their analyses and utilize various software packages to preprocess data. Structural and functional connectome maps can be reconstructed with respect to user-defined (sub)cortical atlases providing aligned connectivity matrices for integrative multimodal analyses. We outline the implementation and usage of the structural and functional processing pipelines in CATO. Performance was calibrated with respect to simulated diffusion weighted imaging from the ITC2015 challenge, test-retest diffusion weighted imaging data and resting-state functional MRI data from the Human Connectome Project. CATO is open-source software distributed under the MIT License and available as a MATLAB toolbox and as a stand-alone application at www.dutchconnectomelab.nl/CATO.Competing Interest StatementThe authors have declared no competing interest.