Hi, I would like to edit .gii files for visualisation purposes, but am really unfamiliar with the format and would greatly appreciate some help. I conducted some ROI surface analyses on structural MRI data using the CAT12 toolbox. I then did some Bayesian analyses outside of the toolbox, ending up…

Here’s an R solution: http://mvpa.blogspot.com/2018/06/tutorial-plotting-gifti-images-in-r.html . Not in the post (yet), but you can have R write the images to .jpg (or other image formats) files for use outside knitr. I haven’t found an R solution for writing giftis, but have from matlab ( https://m…

There’s also some ways to visualize .gii files using connectome-workbench. ( https://www.humanconnectome.org/software/get-connectome-workbench ). To visualize an ROI-wise result the “best” solution would be to write the result into a “.pscalar.nii” file (that hold the ROI label info and the numerical…

Hey again, thank you so much, both of you. I got it now. I found these two blog posts really helpful, too. [image] assigning arbitrary values to surface parcels: method 1 This tutorial describes a method for plotting arbitrary per-parcel values (such as from an analysis) on the surface.…

You might also consider using Surfice. You have two options: If your activation regions are in a standard Atlas, you can use the function ATLASSTATMAP . You can either provide this with all your regional instensities (e.g. an array with 189 statistical values if your atlas has 189 areas) or if you…

Oh cool. That looks really nice, too. I’ll check it out. :slight_smile: Thanks for your help and for sharing. Kristina

Editing .gii files

kwiebels August 31, 2018, 8:30am 4

Hey again,

thank you so much, both of you. I got it now. I found these two blog posts really helpful, too.

Thanks again,
Kristina

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