Hi Xixi,

In the first part you have:

1) The cluster number; these are ranked in descending order by size (here, there is just one, the cluster 1)
2) The x,y,z coordinates of the centre of mass (here -7.97,-12.6,28.3)

In the second part, you have a discrimination of the gives the (average) probability of the cluster being a member of the each of the regions of the atlas (this probability is the same given by atlasquery, that is, averaged over all voxels within the cluster).

Hope this helps.

All the best,


On 26 August 2017 at 09:53, Yang, Xixi <[log in to unmask]> wrote:

Dear Anderson

Many thanks! You are always quite helpful.

I have been able to get the atlas output and I have one more questions: how to interpret the meaning of the numbers in yellow and in green in the following output.


Structures to which each center of mass belongs to:
1,-7.97,-12.6,28.3,JHU ICBM-DTI-81 White-Matter Labels,Body of corpus callosum
Structures to which each cluster belongs to:

Cluster #1
Genu of corpus callosum:2.77612
Body of corpus callosum:9.45522

Many thanks in advance!!

Best wishes


From: FSL - FMRIB's Software Library <[log in to unmask]> on behalf of Anderson M. Winkler <[log in to unmask]>
Sent: 25 August 2017 10:13:41
To: [log in to unmask]
Subject: Re: [FSL] cluster output
Hi Xixi,

The command "autoaq" (automatic atlas queries) can be used for this. Use 0.95.

All the best,


On Wednesday, 23 August 2017, SUBSCRIBE FSL Xixi. Y <[log in to unmask]> wrote:
Dear experts

I have got some results after TBSS randomise and would like to see which are the clusters showing significance (p < 0.05)

Based on 'Cluster' webpage, I got the values of clusters in size order, but how could I get the names (atlas) of the clusters? Is there anyway to output the names (atlas) of the clusters and the values, etc.

Besides, when I run the command:
cluster --in=<filename> --thresh=<value>
is it correct if I put 0.05 as the thresh value? Or should I put 0.95 based on TBSS commands?

Many thanks in advance!

Best wishes