Image processing pipelines and measurement outcomes
| Sequence type | Processing pipelines | Measurement outcome |
| 3D-T1-weighted | Freesurfer V.6.0 | Whole brain and regional volumes cortical thickness |
| FLAIR | Cerebra-LET (CIPAC) | White matter hyperintensity volumes |
| rs-fMRI | FSL | Default mode network connectivity |
| DWI | FSL, ExploreDTI | FA, MD, RD, PSMD, structural connectivity |
| qT1 | CIPAC custom pipeline | Mean regional T1 values, VBM |
| qT2 | StimFit27 | Mean regional T2 values, VBM |
| QSM | CIPAC custom pipeline | Mean regional susceptibility values, mean regional T2* values, cerebral microbleed detection |
| pcASL | GE scanner generated CBF maps; BASIL (FSL) | Mean regional CBF values |
T1, spin–lattice relaxation time constant; T2, spin–spin relaxation time constant.
BASIL, Bayesian inference for arterial spin labeling; CBL, cerebral blood flow (mL/min/100 g tissue); Cerebra-LET, Cerebra Lesion Extraction Tool; CIPAC, calgary image processing and analysis centre; DWI, diffusion-weighted imaging; FA, fractional anisotropy; MD, mean diffusivity; pcASL, pseudo-continuous arterial spin labelling; PSMD, peak skeletonised mean diffusivity; QSM, quantitative susceptibility mapping; RD, radial diffusivity; rs-fMRI, resting state functional magnetic resonance imaging.