<p>I think to use the MRIcorn is the easiest way,
You can put the AAL3v1.nii.gz and AAL3v1.nii.txt into the mricron-templates folder.
<a href="https://i.sstatic.net/yxZ5Y.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/yxZ5Y.png" alt="enter image description here" /></a></p>
<p>by the way which software you use to do fMRI meta-analysis?</p>
<p>best,
Hui Zheng
Shanghai Mental Health Center</p>

CC BY-SA 4.0
2020-09-07T14:57:20.903Z
Thank you. That's great. I'm using GingerAle to do a meta-analysis but I understand SDM may be used instead.
http://www.brainmap.org/ale/
https://www.sdmproject.com/
PCS
CC BY-SA 4.0
2020-09-04T16:23:51.387Z
2020-09-04T16:23:51.387Z
Hui Zheng
<p>I have an fMRI overlay that was output from meta-analysis software, so I only have the .nii results file, no raw data. I would like to view this file in conjuction with the AAL3 atlas.</p>
<ul>
<li><p>I usually use FSL but I cannot work out how to get the AAL3 atlas to work in FSL (I've managed to get the aal3v1.nii file into the right place but when I try to select it in the atlas pane, it hangs).</p>
</li>
<li><p>I'm less familiar with MRICron but I did manage to get the AAL3 atlas to load. I cannot, however, get the brain region labels to show and it's the labels that I need.</p>
</li>
<li><p>I have never used SPM before. I've tried following several instruction manuals/tutorials but cannot even work out how to view my overlay. The AAL3 instructions are for SPM and talk about setting up contrasts and so on but I only have the .nii file - I don't have any data to analyse.</p>
</li>
</ul>
<p>Can anyone offer an idiot's guide to viewing an overlay with the AAL3 atlas, please, in any program? I've spent so many hours trying to work this out but I'm totally lost.</p>

<fmri><spm>
View fMRI results with AAL3 atlas
PCS
# View fMRI results with AAL3 atlas

(Asked by: username_0 on 2020-08-24)

I have an fMRI overlay that was output from meta-analysis software, so I only have the .nii results file, no raw data. I would like to view this file in conjuction with the AAL3 atlas.

* I usually use FSL but I cannot work out how to get the AAL3 atlas to work in FSL (I've managed to get the aal3v1.nii file into the right place but when I try to select it in the atlas pane, it hangs).
* I'm less familiar with MRICron but I did manage to get the AAL3 atlas to load. I cannot, however, get the brain region labels to show and it's the labels that I need.
* I have never used SPM before. I've tried following several instruction manuals/tutorials but cannot even work out how to view my overlay. The AAL3 instructions are for SPM and talk about setting up contrasts and so on but I only have the .nii file - I don't have any data to analyse.

Can anyone offer an idiot's guide to viewing an overlay with the AAL3 atlas, please, in any program? I've spent so many hours trying to work this out but I'm totally lost.

**Tags:** fmri, spm


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## 1 answers

### Answer by username_1 on 2020-09-04. Score: 2 | Accepted answer

I think to use the MRIcorn is the easiest way,
You can put the AAL3v1.nii.gz and AAL3v1.nii.txt into the mricron-templates folder.
[![enter image description here](https://i.sstatic.net/yxZ5Y.png)](https://i.sstatic.net/yxZ5Y.png)

by the way which software you use to do fMRI meta-analysis?

best,
username_1
Shanghai Mental Health Center

> **Comments:**
> **username_0**: Thank you. That's great. I'm using GingerAle to do a meta-analysis but I understand SDM may be used instead. http://www.brainmap.org/ale/ https://www.sdmproject.com/  

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