myPLS toolbox - PLS analysis for medical image processing

Requirements:

• Matlab 2017a or higher

• SPM for saving results onto volume

• Slover to display slice maps

• Function ploterr (Copyright (c) 2008, Felix Zoergiebel) for bar plots

Getting started:

• Please have a look at the example scripts to get an overview on all setup options and to see how to run the PLS scripts.

• In the 'docu' folder, you will find a documentation that contains a short introduction into the principles of PLS and a few general guidelines for setting up your PLS analysis.

For general descriptions of PLS for medical image analysis, we refer to:

• Krishnan, A., Williams, L.J., McIntosh, A.R., Abdi, H., 2011. Partial Least Squares (PLS) methods for neuroimaging: A tutorial and review. Neuroimage 56, 455–475. doi:10.1016/j.neuroimage.2010.07.034

• McIntosh, A.R., Lobaugh, N.J., 2004. Partial least squares analysis of neuroimaging data: Applications and advances. Neuroimage 23, 250–263. doi:10.1016/j.neuroimage.2004.07.020

Code from this toolbox has been used in these papers:

Behavior PLS with brain network-based measures:

• Zöller, D., Sandini, C., Karahanoğlu, F.I., Padula, M.C., Schaer, M., Eliez, S., Van De Ville, D., 2019. Large-scale brain network dynamics provide a measure of psychosis and anxiety in 22q11.2 deletion syndrome. Biol. Psychiatry Cogn. Neurosci. Neuroimaging 4, 881-892. doi:10.1016/j.bpsc.2019.04.004

Behavior PLS with connectivity measures and different grouping in PLS and resampling:

• Kebets, V., Holmes, A.J., Orban, C., Tang, S., Li, J., Sun, N., Kong, R., Poldrack, R.A., Yeo, B.T.T., 2019. Somatosensory-Motor Dysconnectivity Spans Multiple Transdiagnostic Dimensions of Psychopathology. Biol. Psychiatry 86, 779-791. doi:10.1016/j.biopsych.2019.06.013

Contrast PLS for multivariate analysis of group differences and developmental effects:

• Zöller, D., Schaer, M., Scariati, E., Padula, M.C., Eliez, S., Van De Ville, D., 2017. Disentangling resting-state BOLD variability and PCC functional connectivity in 22q11.2 deletion syndrome. Neuroimage 149, 85–97. doi:10.1016/j.neuroimage.2017.01.064

• Zöller, D., Padula, M.C., Sandini, C., Schneider, M., Scariati, E., Van De Ville, D., Schaer, M., Eliez, S., 2018. Psychotic symptoms influence the development of anterior cingulate BOLD variability in 22q11.2 deletion syndrome. Schizophr. Res. 193, 319–328. doi:10.1016/j.schres.2017.08.003

Code written by Prof. Dimitri Van De Ville, Daniela Zoeller and Valeria Kebets, with subfunctions borrowed from PLS toolbox by Rotman Baycrest (https://www.rotman-baycrest.on.ca/index.php?section=84)

These scripts and functions are based on myPLS scripts previously published on https://miplab.epfl.ch/index.php/software/PLS

• Release v1.0 (25/09/2019): Initial release of myPLS toolbox

Please contact Daniela Zoller at [email protected] or Valeria Kebets at [email protected]. You can also reach us at the myPLS Slack channel: http://myplstoolbox.slack.com/