DPARSF ROI-wise connectivity

Submitted by MCube78 on Wed, 09/28/2011 - 06:32

Hi, I am trying to run FC on my data, and what I am interested in is ROI-wise correlations, rather than full brain values for each ROI. I see DPARSF generated one image per ROI (which I understand to be the correlation of each voxel with the timecourse of that ROI, as well as the z-transform of the correlation) Is there a way for DPARSF to output a matrix with the FC between all the ROIs I selected, or is the best way to do it to take the ROI_ROIFCMap.txt files for each ROI and correlate those? (these files are the preprocessed average timecourse for each ROI, correct?)

thank you

Martin

Submitted by ZHANG_RESTadmin on Tue, 10/04/2011 - 14:27

When you perform FC using DPARSF, you can see from the parameter setting window that there are two options: one is ROI-wise correlation, which does exactly what you want to do; and the other is voxel-wise correlation, which will produce an FC map for a ROI.

Hope it helps.
Han

Submitted by MCube78 on Tue, 10/04/2011 - 23:49

Hi Han,

thank you for the answer, but that is not quite what I see..
When I click on functional connectivity, and then click on the DEFINE ROI button all I see is a menu to input the ROIs, and in that I load in all my pre-defined masks. I don't see anywhere a button saying ROI-WISE or Voxel-wise. I did download the latest version though.

How do I find that button?

best

Martin

Submitted by ZHANG_RESTadmin on Wed, 10/05/2011 - 14:54

Hi Martin,

You can try REST toolkit.
For detailed instructions please find the course on top of the website (Course menu).
In 'Data_Process_of_Rest_fMRI_Part1' you will see how to do.

Han

Submitted by MCube78 on Thu, 10/06/2011 - 00:17

Thank you Han. Just to clarify, you are saying I cannot do ROI-wise FC with DPARSF but need to do it with REST?

I will give it a shot - thank you for the support!

Martin

PS: I should say that overall the suite is working very well with my data.. :)

Submitted by MCube78 on Tue, 10/11/2011 - 01:35

Han,

I just checked the "extract ROi timecourse" option and it worked like a charm (i.e., it writes exactly the ROI-wise correlation matrix I was looking for).

thank you!

martin

Submitted by YAN Chao-Gan on Sun, 10/09/2011 - 23:10

Hi Martin!

You can find ROI-wise and Voxel-wise in REST.

For DPARSF, if you just check "Functional Connectivity", you can only get voxel-wixe FC map for each of your ROI.

However, if you want to get ROI-wise Functional Connectivity between your ROIs, you need to check "Extract ROI Time Courses" also. DPARSF will extract the ROI time courses for you and get the ROI-wise Functional Connectivity automatically for you. I think I have emphasized this part in the Video Course. I will update the English version of Video Course in soon since the English version is really ancient.

Thanks!

Submitted by xyma on Thu, 06/05/2014 - 10:48

 严老师，您好！

         我想使用DPARSF做6个ROI分别与全脑的功能连接，请问是不是在DPARSF中勾选“Functional Connectivity”并添加自定义“Define ROI”就可以了？

         另外，想问，如果同时勾选了“Extract ROI time courses” 会怎样？就是6个ROI之间的功能连接了吗？其结果进行双样本统计分析会产生全脑ROI以外的功能连接增强或减弱显著区域吗？

谢谢～