[Mristudio-users] Load ROIs in fibre tracking

[Barbara Bendlin]

Hello all,
I am having a problem loading an ROI for fiber tracking. What happens is this: 
After fiber tracking I draw the ROI in DTI Studio (genu of the corpus callosum for example).
The fibers are displayed. 
I then save the ROI as "binary map" format. 
When I attempt to load the ROI again (using the load tab under "ROI operation"), I choose the RoiMap_ROI.map file and get this error message:
"file OPEN error: C:\Documents"
I get the same error message when the ROI is created in ROI Editor. 
Is this a problem with the location of my files? DTI studio .exe is located on C:\Program Files\dtistudio 
My ROI files are located in C:\Documents and Settings\dom-user\My Documents\Studies\
Or maybe I am missing something else?
Thanks for your help.
Barb


>>> susumu <susumu at mri.jhu.edu> 9/5/2008 11:40 AM >>>
 

Hi Shan,

 

Hangyi may have a more "official" answer to your question, but I want to
introduce you to the "Binary Map" option.

 

When you store your ROI, there are several options for the format and one of
them is the "Binary Map". If you click it, you get 3 files. Two 3D binary
files (your ROI pixels are 1 and all other pixels are 0) and one text file.
You get the two binary files because you drew 2 ROIs. If you drew 3 ROIs,
you get 3 binary files. Please open the text file and study what's inside.
It is like a header file containing information about the ROI binary file
paths and image dimensions. There you can also find "operation" fields, in
which you can specify how to use each ROI files. If one ROI have operation
"0", then it is used as "OR". "1" is for "AND". There is an explanation at
the end of the file. You can specify the two ROI files for CUT#1 and CUT#2
too. 

 

This format is much more powerful because you can import any 1/0 binary
maps, such as fMRI activation maps, and combine them with different
operators (OR, AND, NOT, CUT etc). Also in this way, you should not have the
problem you reported.

 

Susumu

 

  _____  

From: mristudio-users-bounces at mristudio.org 
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of
Shan.Shen at surrey.ac.uk 
Sent: Thursday, August 28, 2008 6:32 AM
To: mristudio-users at mristudio.org 
Subject: [Mristudio-users] Save ROIs in fibre tracking

 

Hi,

 

I would like to use the 'cut' operation to track fibres between two ROIs. I
did the fibre tracking first, then drew the two ROIs, the fibres displayed
were those between the two ROIs. However, if I save the ROIs and load them
again, this time the fibres displayed are not the ones between the ROIs
anymore, but are fibres passing through one of the ROIs. Could anyone tell
me what the possible problem is? I tried saving the ROIs as different
formats, but the problem is the same.

 

Many thanks

 

 

shan