[Mristudio-users] color coded maps

[skhekmat]

One quick question, which color coded orientation map is important for
display? It creates three color map files after tensor calculation,  ( Looks
same as when I create by multiplying eigen vector with FA map). I have seen
people displaying different color coded maps . What is proper representation
of directional coded FA map?

 

From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of susumu mori
Sent: Wednesday, April 10, 2013 3:05 PM
To: DTI Studio, ROI Editor, DiffeoMap Questions/Support
Subject: Re: [Mristudio-users] saving gradient file

 

I simply save it as a text file and cut&paste.

You can also try *.dpf format.

 

On Wed, Apr 10, 2013 at 1:22 PM, skhekmat <skhekmat at hotmail.com> wrote:

Hello DTI Studio users

Is there any way to save my own gradient file(s) on the computer?

Thanks

Ned 

 

From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of skhekmat
Sent: Friday, April 05, 2013 2:02 PM
To: 'DTI Studio, ROI Editor, DiffeoMap Questions/Support'
Subject: Re: [Mristudio-users] masking

 

Hello Susumu

Thanks for providing suggestions, I tried to follow that, I do have some
questions on that.

 

From: mristudio-users-bounces at mristudio.org
[mailto:mristudio-users-bounces at mristudio.org] On Behalf Of susumu mori
Sent: Thursday, April 04, 2013 5:34 PM
To: DTI Studio, ROI Editor, DiffeoMap Questions/Support
Subject: Re: [Mristudio-users] masking

 

Hi Ned,

 

The simplest masking you can use is the intensity threshold.

When you click "tensor" calculation, there is a section to define an
intensity threshold. This should suppress most of the background noise
floor.

My question is, In DTI map option ( in tensor calculation) does it create
and save a mask file  using threshold option 10 %) somewhere explicitly in
my computer? If so, I could not find it.

 

 

More sophisticated method is to apply for skull-strip.

You can do this at the tensor calculation by loading a masking file, again,
within the tensor calculation window.

The brain mask file should contain 1/0 information. 

 

Using this option,  I created a roi mask file in binary format and but
unable to load at tensor calculation, may be it reads only rec file

Or, you can skull-strip after tensor calculation.

 

Using this, is a better option, after tensor calculation, I do not know how
to apply to resultant images. 

For the skull-strip, you can use any software out there. We use our own
skull-strip function in RoiEditor.

You can load FA, trace, and other images with b0 or iDWI (the sum of all
DWIs you can calculate in DtiStudi).

 

You can use b0 or iDWI for skull stripping and the resultant masking is
applied to all loaded images.

 

Hope this will help.

 

Susumu

 

On Thu, Apr 4, 2013 at 12:34 PM, skhekmat <skhekmat at hotmail.com> wrote:

Hello All

Is there any function to create a mask in DTI studio, so that I will apply
in Tensor mapping? I could create using other softwares, however,
transformation causes so many issues.

Thanks

Ned


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