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Welcome to the forum of resting-state fMRI

Anticorrelations

 Hi again,
I am interested in using REST to examine anticorrelations. I just wanted to check the following:
1 - If I include a global signal timeseries as a covariable, then the analysis will produce maps showing voxels significantly correlated with the seed timecourse after controlling for global signal fluctuations. That is, it is essentially like performing a global signal regression. Is this correct?
2 - Anticorrelations will be revealed by negative values in the resulting connectivity and z-maps. Is this correct?

thanks for your help,

Maximum variable size

 Hi,
I tried to start a seed-based connectivity analysis, but it stopped at the first, detrending stage with the error: "Maximum variable size allowed by the program is exceeded".

Is there a limit on the number of volumes or subjects that can be analysed? I have 840 volumes. I was trying a pilot analysis in 5 subjects.

Thanks for your help,
Alex

Pleae resmaple your mask or ROI definition file first!

Hi, Cleofé Peña Gómez!
     1. You need to resample your mask or ROI file to the dimension of your functional images.
          There were three ways: (1) use SONG Xiao-Wei's program, from http://restfmri.net/forum/node/78                              

                                                 (2) use my program, from http://restfmri.net/forum/node/81   (the third one)
                                                 (3) use SPM5:
                                                                       a. Click "Coregister"
                                                                       b. Click "New "Coreg: Reslice""
                                                                       c. "Image Defining Space": choose one of your functional image. e.g. your normalized functional image or image after Detrend and Filter.
                                                                       d. "Images to Reslice": choose the mask file or ROI definition file. e.g. BrainMask_05_61x73x61.img
                                                                       e. "Reslice Options" -> "Interpolation": choose "Nearest neighbour"
                                                                       f. Just click "Run". Then you will get the resmapled mask or ROI file with a surfix of "r".
      

REST functional connectivity error 'Matirix dimensions'

Hi, REST exparts

 I'm trying to analyze my resting state fMRI data using by REST functional connectivity. I've tried many times, but I always encount this error.

Exception occured
Error using ==>eq
Matrix dimensions must agree

I think that dimensions of my data don't match. Dimensions of my data are 79X95X69(Vox size 2X2X2, smooth 6mm). How can I solve this probrem? I'm sorry I'm just a biginner.

 Thanks in advance.
Sincerely,
 Yuki

Q&A: "REST error...ReadNiftiImage.m"

Hello,

I am trying to analyze some resting state data using REST, but I cannot load the data in the GUI.  Am I correct to assume we need to enter data in conseqcutive file names of ANALYZE format?  The error message I get in Matlab refers to line 103 of rest_ReadNiftiImage.m

Is this script necessary if we are using ANALYZE not NIFTI?  If it is not necessary how do I skip it.

I do not know how to proceed.  Any assistance would be greatly appreciated.

Thank you,

Carlos

静息态研究

各位老师:
      大家好!我记得曾经看过一篇文章上说静息态默认网络中的脑区在有刺激的作用下时信号会降低,但现在一直没找到当时看的那篇文章,想请问各位老师是不是真有这个结论,如果有含有这个结论的文章能否给我传一份?谢谢!我的邮箱是:qiuwenjuan1014@yahoo.cn

REST codes analysis

Thanks to Guillaume Flandin's m2html, the whole up-to-date REST codes is analyzed in html web format at:
 http://restfmri.net/pub/rest_20090422/doc/ .

ReHo: quickly get the ranks for matrix

Hi, Xiao-Wei

I just write these here and suggest you use methods below to get the ranks more quickly:
(here I suppose symbol V means a 4D fMRI matrix)
%-----------------------------------------------
[Y,I]=sort(V,4);
[X,R]=sort(I,4);
%-----------------------------------------------
R should be the ranks 4D matrix, which can be used for ReHo computation. These two lines code make computation faster in MATLAB (around 10s for one 4D fMRI data).

Say hi to your guys
XINIAN

RE: long mixed session of rest and task

A long session, 22 minutes: Resting state 9 minutes, and then a blocked design (2 minutes task + 30s rest) 13 minutes. The questions are:
(1) Is the head motion a concern?
(2) Can the 9-minutes rest be used as a baseline for the data analysis of the blocked design?

My answer:
(1) Yes. There may be more head motion for such a long session. But occasionally, a long rest is necessary (e.g., epilepsy and sleep study).

Some Useful Programs

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