shiino | 2 Mar 02:54
Picon

Can MarsBar calculate mean z-scores of VBM?

Dear Dr. Matthew Brett:

I would like to use MarsBar software to get mean z-scores within ROIs  
defined by this software. First, I challenged Tutorials following the  
manual. I downloaded three packs, marsbar, marsbar AAL ROIs, and  
marsbar example data. I put marsbar program into (**)/spm5/toolbox/,  
and I confirmed the program run (I saw the "Fish").

In starting the tutorial of the manual (page 4), it said  
marsbar_example_data(-0.3?) directory contains four subdirectories;  
sess1, sess2 and sess3. Is the last one is "rois"? I can see "batch"  
directory in **/spm5/toolbox/marsbar/example/batch. Anyway, I moved  
directory to the batch directory in the matlab71, and the typed  
"run_preprocess".

 >> run_preprocess
MarsBaR analysis functions prepended to path
Loaded MarsBaR defaults from base defaults

There is small window "Root directory of example data". Then, what  
should I do?  Should I select X directory and click Done?

I appreciate if you kindly help me. Thank you!

Akihiko Shiino M.D.
Department of Neurosurgery,
Shiga University of Medical Science
Seta, Ohtsu, Shiga, 520-2192, Japan
TEL:+81-77-548-2256
FAX:+81-77-548-2531
(Continue reading)

Mazly Mohamad | 2 Mar 14:20
Picon
Favicon

Percent Signal Change

Dear Marsbar Users,
 
First of all, I'm using a fMRI - silent/sparse paradigm with TR=16s with 6s stimulus duration. Before this to extract PSC, the  duration   I defined in Marsbar is "0". Is this the correct value? Should I put 6 or 16? I'm really confused. Please help me. Thanks in advance.
 
 
Regards
 
Farina
 

------------------------------------------------------------------------------
Open Source Business Conference (OSBC), March 24-25, 2009, San Francisco, CA
-OSBC tackles the biggest issue in open source: Open Sourcing the Enterprise
-Strategies to boost innovation and cut costs with open source participation
-Receive a $600 discount off the registration fee with the source code: SFAD
http://p.sf.net/sfu/XcvMzF8H
_______________________________________________
Marsbar-users mailing list
Marsbar-users <at> lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/marsbar-users
annie | 3 Mar 20:10
Picon
Favicon

[SPAM] really need to talk to you get on MSN messanger please

Do you have MSN messengr ??

I just installed it and I think you should msg me at paris89cat <at> hotmail.com.

I have a few things I wanna tell u

------------------------------------------------------------------------------
Open Source Business Conference (OSBC), March 24-25, 2009, San Francisco, CA
-OSBC tackles the biggest issue in open source: Open Sourcing the Enterprise
-Strategies to boost innovation and cut costs with open source participation
-Receive a $600 discount off the registration fee with the source code: SFAD
http://p.sf.net/sfu/XcvMzF8H
dana | 4 Mar 15:13
Picon

[SPAM] hey

My friend gave me your email so I could msg you, I hope you dont mind.

I think your TOTALLY hot and want to talk to you more! msg me on MSN paris24cat <at> hotmail.com

------------------------------------------------------------------------------
Open Source Business Conference (OSBC), March 24-25, 2009, San Francisco, CA
-OSBC tackles the biggest issue in open source: Open Sourcing the Enterprise
-Strategies to boost innovation and cut costs with open source participation
-Receive a $600 discount off the registration fee with the source code: SFAD
http://p.sf.net/sfu/XcvMzF8H
曾tmt | 11 Mar 18:02
Picon

How to get the size of ROI in mm3 ?

Hi  

I am a new user of MarsBar. I viewed the ROI of the left inferior parietal lobule defined in the automated anatomical labeling ROI library, and its volume is "19576 mm". How can I get it's size in mm3?  

Thanks a lot. 

Carlos

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com
_______________________________________________
Marsbar-users mailing list
Marsbar-users <at> lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/marsbar-users
Matthew Brett | 11 Mar 18:50
Picon
Gravatar

Re: How to get the size of ROI in mm3 ?

Hi,

> I am a new user of MarsBar. I viewed the ROI of the left inferior parietal
> lobule defined in the automated anatomical labeling ROI library, and its
> volume is "19576 mm". How can I get it's size in mm3?

That is (should be) the size in mm3,

Best,

Matthew

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com
spam_master | 11 Mar 19:10
Picon

[Err] Marsbar-users Digest, Vol 32, Issue 1

Transmit Report:

lark <at> korea.ac.kr¿¡°Ô ¸ÞÀÏ ¹ß¼ÛÀ» 4¹ø ½ÃµµÇßÁö¸¸ ½ÇÆÐÇÏ¿´½À´Ï´Ù.
(½ÇÆÐ ÀÌÀ¯ : 554 Transaction failed. 451 Requested action aborted: User UnKnown
lark <at> korea.ac.kr *MDAUserContext::readFrom()(163.152.6.99))

<Âü°í> ½ÇÆÐ ÀÌÀ¯¿¡ ´ëÇÑ ¼³¸í
User unknown       :¸ÞÀÏÀ» ¼ö½ÅÇÒ »ç¿ëÀÚ°¡ Á¸ÀçÇÏÁö ¾ÊÀ½
Socket connect fail:¼ö½Å ¸ÞÀÏ ¼­¹ö¿Í ¿¬°á ½ÇÆÐ
DATA write fail    :¼ö½Å ¸ÞÀÏ ¼­¹ö·Î ¸Þ¼¼Áö ¼Û½Å ½ÇÆÐ
DATA reponse fail  :¼ö½Å ¸ÞÀÏ ¼­¹ö·ÎºÎÅÍ ¸Þ¼¼Áö ¼ö½Å ½ÇÆÐ
Attachment: message/delivery-status, 263 bytes
Picon
From: Transmit Report: lark <at> korea.ac.kr¿¡°Ô ¸ÞÀÏ ¹ß¼ÛÀ» 4¹ø ½ÃµµÇßÁö¸¸ ½ÇÆÐÇÏ¿´½À´Ï´Ù. (½ÇÆÐ ÀÌÀ¯ : 554 Transaction failed. 451 Requested action aborted: User UnKnown lark <at> korea.ac.kr *MDAUserContext::readFrom()(163.152.6.99)) <Âü°í> ½ÇÆÐ ÀÌÀ¯¿¡ ´ëÇÑ ¼³¸í User unknown :¸ÞÀÏÀ» ¼ö½ÅÇÒ »ç¿ëÀÚ°¡ Á¸ÀçÇÏÁö ¾ÊÀ½ Socket connect fail:¼ö½Å ¸ÞÀÏ ¼­¹ö¿Í ¿¬°á ½ÇÆÐ DATA write fail :¼ö½Å ¸ÞÀÏ ¼­¹ö·Î ¸Þ¼¼Áö ¼Û½Å ½ÇÆÐ DATA reponse fail :¼ö½Å ¸ÞÀÏ ¼­¹ö·ÎºÎÅÍ ¸Þ¼¼Áö ¼ö½Å ½ÇÆÐ <marsbar-users-request <at> lists.sourceforge.net>
Subject: Marsbar-users Digest, Vol 32, Issue 1
Date: 2009-03-11 17:50:57 GMT
Send Marsbar-users mailing list submissions to
	marsbar-users <at> lists.sourceforge.net

To subscribe or unsubscribe via the World Wide Web, visit
	https://lists.sourceforge.net/lists/listinfo/marsbar-users
or, via email, send a message with subject or body 'help' to
	marsbar-users-request <at> lists.sourceforge.net

You can reach the person managing the list at
	marsbar-users-owner <at> lists.sourceforge.net

When replying, please edit your Subject line so it is more specific
than "Re: Contents of Marsbar-users digest..."

Today's Topics:

   1. [Err] Marsbar-users Digest, Vol 31, Issue 2
      (spam_master <at> korea.ac.kr)
   2. Can MarsBar calculate mean z-scores of VBM? (shiino)
   3. Percent Signal Change (Mazly Mohamad)
   4. [SPAM] really need to talk to you get on MSN	messanger please
      (annie)
   5. [SPAM] hey (dana)
   6. How to get the size of ROI in mm3 ? (?tmt)
   7. Re: How to get the size of ROI in mm3 ? (Matthew Brett)

----------------------------------------------------------------------

Message: 1
Date: Fri, 27 Feb 2009 10:53:25 +0900
From: spam_master <at> korea.ac.kr
Subject: [Marsbar-users] [Err] Marsbar-users Digest, Vol 31, Issue 2
To: marsbar-users <at> lists.sourceforge.net
Message-ID:
	<mailman.23487.1236793857.7898.marsbar-users <at> lists.sourceforge.net>
Content-Type: text/plain; charset="us-ascii"

Transmit Report:

lark <at> korea.ac.kr  ߼ 2 õ Ͽϴ.
(  : 554 Transaction failed. 451 Requested action aborted: User UnKnown lark <at> korea.ac.kr *MDAUserContext::readFrom()(163.152.6.99))

<>    
User unknown       :  ڰ  
Socket connect fail:    
DATA write fail    :   ޼ ۽ 
DATA reponse fail  :  κ ޼  
-------------- next part --------------
An embedded message was scrubbed...
From: marsbar-users-request <at> lists.sourceforge.net
Subject: Marsbar-users Digest, Vol 31, Issue 2
Date: Fri, 27 Feb 2009 01:47:32 +0000
Size: 9148

------------------------------

Message: 2
Date: Mon, 2 Mar 2009 10:54:19 +0900
From: shiino <shiino <at> belle.shiga-med.ac.jp>
Subject: [Marsbar-users] Can MarsBar calculate mean z-scores of VBM?
To: marsbar-users <at> lists.sourceforge.net
Message-ID:
	<938F8140-A191-4A81-B912-4F3E658A636F <at> belle.shiga-med.ac.jp>
Content-Type: text/plain; charset=US-ASCII; format=flowed; delsp=yes

Dear Dr. Matthew Brett:

I would like to use MarsBar software to get mean z-scores within ROIs  
defined by this software. First, I challenged Tutorials following the  
manual. I downloaded three packs, marsbar, marsbar AAL ROIs, and  
marsbar example data. I put marsbar program into (**)/spm5/toolbox/,  
and I confirmed the program run (I saw the "Fish").

In starting the tutorial of the manual (page 4), it said  
marsbar_example_data(-0.3?) directory contains four subdirectories;  
sess1, sess2 and sess3. Is the last one is "rois"? I can see "batch"  
directory in **/spm5/toolbox/marsbar/example/batch. Anyway, I moved  
directory to the batch directory in the matlab71, and the typed  
"run_preprocess".

 >> run_preprocess
MarsBaR analysis functions prepended to path
Loaded MarsBaR defaults from base defaults

There is small window "Root directory of example data". Then, what  
should I do?  Should I select X directory and click Done?

I appreciate if you kindly help me. Thank you!

Akihiko Shiino M.D.
Department of Neurosurgery,
Shiga University of Medical Science
Seta, Ohtsu, Shiga, 520-2192, Japan
TEL:+81-77-548-2256
FAX:+81-77-548-2531
E-mail: shiino <at> belle.shiga-med.ac.jpc.jp

------------------------------

Message: 3
Date: Mon, 2 Mar 2009 05:20:08 -0800 (PST)
From: Mazly Mohamad <mama_helmi <at> yahoo.com>
Subject: [Marsbar-users] Percent Signal Change
To: marsbar-users <at> lists.sourceforge.net
Message-ID: <423733.306.qm <at> web110216.mail.gq1.yahoo.com>
Content-Type: text/plain; charset="iso-8859-1"

Dear Marsbar Users,
?
First of all, I'm using a fMRI - silent/sparse paradigm with TR=16s with 6s stimulus duration. Before this
to extract PSC, the? duration?? I defined in Marsbar is "0". Is this the correct value? Should I put 6 or 16?
I'm really confused. Please help me. Thanks in advance.
?
?
Regards 
?
Farina
?

      
-------------- next part --------------
An HTML attachment was scrubbed...

------------------------------

Message: 4
Date: Tue, 03 Mar 2009 19:10:24 GMT
From: annie <annieWoodard83 <at> att.com>
Subject: [Marsbar-users] [SPAM] really need to talk to you get on MSN
	messanger please
To: <marsbar-users <at> lists.sourceforge.net>
Message-ID: <49AD80A0.1024059 <at> att.com>
Content-Type: text/plain

Do you have MSN messengr ??

I just installed it and I think you should msg me at paris89cat <at> hotmail.com.

I have a few things I wanna tell u

------------------------------

Message: 5
Date: Wed, 04 Mar 2009 14:13:22 GMT
From: dana <danaBuchanan27 <at> gmail.com>
Subject: [Marsbar-users] [SPAM] hey
To: <marsbar-users <at> lists.sourceforge.net>
Message-ID: <49AE8C82.1004152 <at> gmail.com>
Content-Type: text/plain

My friend gave me your email so I could msg you, I hope you dont mind.

I think your TOTALLY hot and want to talk to you more! msg me on MSN paris24cat <at> hotmail.com

------------------------------

Message: 6
Date: Thu, 12 Mar 2009 01:02:20 +0800
From: ?tmt <tmtfemh <at> gmail.com>
Subject: [Marsbar-users] How to get the size of ROI in mm3 ?
To: marsbar-users <at> lists.sourceforge.net
Message-ID:
	<e452d1e60903111002k100c1033t4c3bce2df9402d00 <at> mail.gmail.com>
Content-Type: text/plain; charset="iso-8859-1"

Hi

I am a new user of MarsBar. I viewed the ROI of the left inferior parietal
lobule defined in the automated anatomical labeling ROI library, and its
volume is "19576 mm". How can I get it's size in mm3?

Thanks a lot.

Carlos
-------------- next part --------------
An HTML attachment was scrubbed...

------------------------------

Message: 7
Date: Wed, 11 Mar 2009 09:50:46 -0800
From: Matthew Brett <matthew.brett <at> gmail.com>
Subject: Re: [Marsbar-users] How to get the size of ROI in mm3 ?
To: ?tmt <tmtfemh <at> gmail.com>
Cc: marsbar-users <at> lists.sourceforge.net
Message-ID:
	<1e2af89e0903111050s6ab24300y181b2dc8f16dc5c5 <at> mail.gmail.com>
Content-Type: text/plain; charset=ISO-8859-1

Hi,

> I am a new user of MarsBar. I viewed the ROI of the left inferior parietal
> lobule defined in the automated anatomical labeling ROI library, and its
> volume is "19576 mm". How can I get it's size in mm3?

That is (should be) the size in mm3,

Best,

Matthew

------------------------------

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com

------------------------------

_______________________________________________
Marsbar-users mailing list
Marsbar-users <at> lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/marsbar-users

End of Marsbar-users Digest, Vol 32, Issue 1
********************************************

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com
_______________________________________________
Marsbar-users mailing list
Marsbar-users <at> lists.sourceforge.net
https://lists.sourceforge.net/lists/listinfo/marsbar-users
CarlosTseng | 12 Mar 03:59
Picon

Re: How to get the size of ROI in mm3 ?


Thanks!!

Matthew Brett wrote:
> 
> Hi,
> 
>> I am a new user of MarsBar. I viewed the ROI of the left inferior
>> parietal
>> lobule defined in the automated anatomical labeling ROI library, and its
>> volume is "19576 mm". How can I get it's size in mm3?
> 
> That is (should be) the size in mm3,
> 
> Best,
> 
> Matthew
> 
> ------------------------------------------------------------------------------
> Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
> powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
> easily build your RIAs with Flex Builder, the Eclipse(TM)based development
> software that enables intelligent coding and step-through debugging.
> Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com
> _______________________________________________
> Marsbar-users mailing list
> Marsbar-users <at> lists.sourceforge.net
> https://lists.sourceforge.net/lists/listinfo/marsbar-users
> 
> 

--

-- 
View this message in context: http://www.nabble.com/How-to-get-the-size-of-ROI-in-mm3---tp22459685p22469005.html
Sent from the MarsBaR mailing list archive at Nabble.com.

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com
Guillaume Filteau | 12 Mar 06:32
Picon
Favicon

Marsbar script for ROIs

Hello all,

  I'm new to marsbar, and I love it so far.

  I'm currently trying to get the mean DTI in a specific ROI for each 
subject. I wrote this matlab script to get the mean DTI for a subject, 
but I'm unsure if my script is correct:

....
roi = maroi('path_to_Roi.mat'); mY = get_marsy (roi, 'path_to_img.img', 
'mean');
Mean_DTI = summary_data (mY);
....

Is this ok?

Thanks,
Guillaume

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com
Matthew Brett | 12 Mar 18:02
Picon
Gravatar

Re: Marsbar script for ROIs

Hi,

>  I'm currently trying to get the mean DTI in a specific ROI for each
> subject. I wrote this matlab script to get the mean DTI for a subject,
> but I'm unsure if my script is correct:
>
> ....
> roi = maroi('path_to_Roi.mat'); mY = get_marsy (roi, 'path_to_img.img',
> 'mean');
> Mean_DTI = summary_data (mY);

That looks right to get the mean of all voxels in one image...

Best,

Matthew

------------------------------------------------------------------------------
Apps built with the Adobe(R) Flex(R) framework and Flex Builder(TM) are
powering Web 2.0 with engaging, cross-platform capabilities. Quickly and
easily build your RIAs with Flex Builder, the Eclipse(TM)based development
software that enables intelligent coding and step-through debugging.
Download the free 60 day trial. http://p.sf.net/sfu/www-adobe-com

Gmane