(no subject)

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Re: [SPM] MARsbar % BOLD Question

Hi,

> I'm trying to do ROI % signal extraction in marsbar and everything seems fine
> until I select % signal change then I get the error
>
> need fMRI design for % signal change

The percent signal change routines need some estimate of the
event-related response - for this you need an FMRI design, with
events, basis functions and so-on.  It's possible to imagine percent
signal change for things like PET designs, but it requires some
thought about what is the baseline and so on.

Best,

Matthew

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PSTH for time before events

Hey,

does anybody know if it is possible to extract a PSTH not only or the  
period after an event, but also for the time preceding it?

Greetz

Christian

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Data extraction without using SPM design

Hi everybody,
I used Marsbar to extract BOLD signals from fMRI images.
I chose the 'full option' extraction and said NO to the Question "Use  
SPM design?".

Moving this way I noticed that the parameter about SPM design remains  
empty, so can I be sure about having extracted the raw data without  
any filtering or similar?

Thanks in advance
Elisa Marchetta

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spm8

hello,
marsbar does not work with spm8 and seems not to launch. 
is there a way to fix this?
 the errors are:
Warning: This usage of "spm ver" is now deprecated. 
  In spm at 811
  In mars_utils at 222
  In marsbar at 99
  In marsbar at 57
  In spm at 910
Warning: Name is nonexistent or not a directory: 
/Applications/matlabthings/spm8/toolbox/marsbar/spm6. 
   In path at 110
  In addpath at 87
  In marsbar at 108
  In marsbar at 57
  In spm at 910
MarsBaR analysis functions prepended to path
??? Undefined function or method 'mars_veropts' for input 
arguments of type 'char'.
Error in ==> marsbar at 112
mars_veropts('defaults');
Error in ==> marsbar at 57
marsbar('on');
Error in ==> spm at 910
    evalin('base',xTB(i).prog);
??? Error while evaluating uicontrol Callback

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Re: [SPM] estimate question using marsbar

Hi,

> I have some error when I process estimate in marsbar
>
> (E=estimate(D,Y) or using the button 'estimate result')
>
> Initialising parameters                
:                   ...computing???
> Index exceeds matrix dimensions.

This might be the inversion of the covariance failing, try this FAQ entry:

http://marsbar.sourceforge.net/faq.html#fmristat

- does that help?

Best,

Matthew

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simple VOI-analysis

Hi

I am looking for a way to perform a very simple VOI-analysis on resting
state fMRI-data in Nifti-format using with Marsbar.

I want to

1.) import my own predefined ROI/VOI in Nifti-Format
2.) Apply this VOI on a number of images (N > 1), which have not been
included into a predefined SPM-design matrix before
3.) Read out mean, max and standard deviation within this VOI on every
single scan included (not across all images). That means: Mean value image
1 = x, Mean value image 2 = y, Mean value image 3 = z, etc.

Somehow, I cannot figure out how to do this with Marsbar, as it appears,
that the programs sticks to predefined SPM.mat design files. However I
want to include images outside of a predefined SPM design matrix.

Is there a simple way to do this very basic analysis ?

I appreciate any advice !

Alex Drzezga

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Prestimulus FIR

Hey everybody,

just a short question. Does anybody know if it is possible to extract  
the FIR timecourses not only for the time after an event onset, but  
for the prestimulus period?

Thanks in advance

Chris

Dr. med. Christian Stoppel
Klinik für Neurologie
Universitätsklinikum Magdeburg A.ö.R
Leipziger Str. 44, 39120 Magdeburg
Tel.: +49 - 391 - 6117 537
Fax.:+49 - 391 - 6117 531

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Help needed

I am trying to train my self to the marsBaR working on matlab 7.2 and  
spm 5, I think I got trapped into the "uigetfile" bug as none of the  
mat.file are found even if I downloaded the latest marsbar version.
I wonder if there is out there any pious user who could follow me in  
this training as I am in real need to become able to run roi analysis  
and statistics for my fMRI doctoral research.
Any help in how to proceed ( if procedure to de-bug remained the same  
etc) is extremely Welcome.

Thank you so much,

AKhairya

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percent signal change for blocked-design fMRI

Hello,

I'm wondering if Marsbar allows for percent signal change to be extracted from
fMRI data collected using a blocked-design. Although I have not thoroughly
researched the Marsbar listserve, it seems that percent signal change in
Marsbar is only for event-related design. Is that correct or am I wrong?  I'd
like to confirm this before I try Marsbar with my data.
Thank you.

Sue

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discrepancy of cluster size between Marsbar and SPM

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