Comments (1)
You can already do that, an example that loads an overlay from MGH/MGZ files and displays it with a suitable colorbar in fsbrain can be found in this live notebook, at the very bottom, section Results: vertex-based
.
Here is some example code, copied from that notebook:
subjects_dir = file.path(find.freesurferhome()$found_at, 'subjects');
subject_id = 'fsaverage';
lh_demo_cluster_file = system.file("extdata", "lh.clusters_fsaverage.mgz", package = "fsbrain", mustWork = TRUE);
rh_demo_cluster_file = system.file("extdata", "rh.clusters_fsaverage.mgz", package = "fsbrain", mustWork = TRUE);
lh_clust = freesurferformats::read.fs.morph(lh_demo_cluster_file); # contains a single positive cluster (activation, group difference), the other values are 0
rh_clust = freesurferformats::read.fs.morph(rh_demo_cluster_file); # contains two negative clusters
vis.symmetric.data.on.subject(subjects_dir, subject_id, lh_clust, rh_clust, bg="curv_light");
If you need correction for multiple comparisons (FDR or something else), stats::p.adjust()
should do that for you.
Please let me know whether that helps, or what problems you are facing.
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