NIfTI to correlation (or covariance) matrix

jennyrieck / C-MARINeR

Connectivity - Multivariate Analyses and Resampling Inference for Neuroimaging in R

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NIfTI to correlation (or covariance) matrix #11

Open derekbeaton opened 5 years ago

derekbeaton commented 5 years ago

Take as input (assumed clean-ish) .nii or .nii.gz files, and make correlation/covariance matrices. See fmri_to_matrix and timeseries_to_matrix

jennyrieck commented 5 years ago

Write code for input of nifti images (ie using oro.nifti or ANTsR or neuroim pacakges) so that functional correlation/covariance matrices can be computed within c-mariner.

Steps:

Read in 4D timecourse data
Read in parcellation/ROI image
Extract mean values in timecourse data for each ROI/node and correlate across the timecourse
Save out correlation/covariance matrix

mychan24 commented 4 years ago

I have something that works for cifti and gifti but not nifti. could be useful to make it a function and wrap them all together?