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visualising group difference maps #40
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Hi @MaLiUHH, sorry for the rather late reply,
Some more details on Point 2: This happens because you have (very few) points with higher values in your data, look at a histogram, or at the area very close to medial wall to see them. Please let me know whether that was helpful, or if you need more help. Best, Tim |
Did you get it to work, @MaLiUHH ? |
Dear Tim, I am sorry for the late reply. I did not yet had the chance to try your suggestions. Sorry also about the redundance for point 3, I forgot to check the closed issues. I will let you know as soon as possible. |
Dear Tim,
resulting in the outcome as hoped for |
One more question - probably also a really simple one: Also, I was unsure if I should have opened a new issue for this question. My apologies if its inconvenient. |
I think due to a bug, this is currently limited to displaying the atlas outine in black/white, but if that is fine for you, see #28 for a solution. No worries about not finding stuff in the FAQ, it's rather hidden and I don't expect people to read it (I just hope it shows up in searches). It's not like I would read FAQs myself. ;) |
hmmm ok, I've actually read this one...phew... But the problem is in fact, that my difference maps are whole-brain and each vertex has a value. So basically there is no annot outline left to see. So I guess my question remains. Is there a way to display the annot on top of the map instead of having it as the background. Out of curiosity I did try just to just switch up the input: Best |
Dear Tim, I just got reminded of my last issue. Would you mind taking another look? |
Dear Mr. Schäfer,
![CC-SCavg_01](https://user-images.githubusercontent.com/75440805/176492104-75ec4941-572d-4f95-8cd0-28cc07d19176.png)
first of all, thanks for the amazing package!
I am currently using group.morph.agg.standard.vertex to calculate group difference maps (i.e. agg.data.group1 - agg.data.group2) and display it using vis.data.on.fsaverage. I played around with RColorBrewer::brewer.pal(5, name = "RdBu")) as a diverging colour palette.
The colour bar doesn't seem centred around 0 = white. The scale takes slightly off to the right/positive side. Is there a way to centre it manually?
Edit: I managed this by adding the symm argument to makecmap_option = list('colFn'=RdBu,'symm'=TRUE)
As you may also see, the differences are actually quite small. Do you have any recommendations on how to improve visibility? Can one for example increase the colour intervalls (small difference = stronger colour)?
I tried using surface = inflated, which resulted in a overlay of both hemispheres. Do you have any suggestions on how to fix that?
![CC-SCavg_02](https://user-images.githubusercontent.com/75440805/176493617-b10285d2-7a5b-424e-8344-ff3d8a573024.png)
Thank you!
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