Re: [Freesurfer] Fwd: DTI questions

[Anastasia Yendiki]

Sorry, motion was my best guess.

On Sun, 30 Jun 2013, Rotem Saar wrote:


Dear Anastasia,

The T1 images were acquired in a sagittal orientation, and the DTI images in
an axial orientation.
Does this help ?

Thanks

Rotem

2013/6/25 Anastasia Yendiki 

  Hi Rotem - No problem. Were these scans by any chance acquired
  with a coronal slice prescription? In the axial views that you
  sent, the artifact that you're pointing to looks like
  misalignment between consecutive coronal slices, which could be
  due to head motion.

  a.y

  On Tue, 25 Jun 2013, Rotem Saar wrote:

Dear Anastasia,
 
I tried several times to upload these images in a
non-compressed way, but
they were too big and my posts were rejected, with
no opportunity for any
other upload way.
Is there any other way for me to upload it so that
everyone can see it ?
 
Attached are the images in a non-compressed fashion.
I will be very happy if
u will have a look, and post your answer to me and
the list to save some
time, until I will be able to consider another way
to upload them.
 
I know that we should write to all the list, but at
the moment if the images
are not visible this won't help - so I will really
appreciate if u will have
a look but also tell me what is the best way to
upload them so that all list
members will be able to see them.
 
Thank u very much for your help.
 
Rotem

2013/6/25 Anastasia Yendiki


      Sorry, can't open the image.

      On Sun, 23 Jun 2013, Rotem Saar wrote:

            Hi there,

            Long time:). Well I wrote to the list
several times
            regarding high FA values
            I got when performing DTI analysis.
            Today we know that the problem was an
additional
            direction (we had 17
            directions instead of 16 - we used a
Philips
            scanner,1.5T). So we deleted
            the additional slices and the high
values indeed
            disappeared, but then
            another problem came up (tried several
subjects so
            the problem is not
            specific to a subject) -

            I noticed an artifact that I can't
explain - please
            see the attached
            pictures.

            This artifact existed even before I
deleted the
            additional slices, also - I
            see the artifact also when loading the
masked
            volume...It is cyclic - run
            over all slices...

            any ideas ?
             
            I'm using version 5.2 and I know the
command lines
            are correct (send it to u
            in the past).

            Thanks for your help

            Rotem




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Re: [Freesurfer] Fwd: DTI questions

[Rotem Saar]

Dear Anastasia,

The T1 images were acquired in a sagittal orientation, and the DTI images
in an axial orientation.
Does this help ?

Thanks

Rotem

2013/6/25 Anastasia Yendiki 

>
> Hi Rotem - No problem. Were these scans by any chance acquired with a
> coronal slice prescription? In the axial views that you sent, the artifact
> that you're pointing to looks like misalignment between consecutive coronal
> slices, which could be due to head motion.
>
> a.y
>
>
> On Tue, 25 Jun 2013, Rotem Saar wrote:
>
>  Dear Anastasia,
>>
>> I tried several times to upload these images in a non-compressed way, but
>> they were too big and my posts were rejected, with no opportunity for any
>> other upload way.
>> Is there any other way for me to upload it so that everyone can see it ?
>>
>> Attached are the images in a non-compressed fashion. I will be very happy
>> if
>> u will have a look, and post your answer to me and the list to save some
>> time, until I will be able to consider another way to upload them.
>>
>> I know that we should write to all the list, but at the moment if the
>> images
>> are not visible this won't help - so I will really appreciate if u will
>> have
>> a look but also tell me what is the best way to upload them so that all
>> list
>> members will be able to see them.
>>
>> Thank u very much for your help.
>>
>> Rotem
>>
>> 2013/6/25 Anastasia Yendiki 
>>
>>   Sorry, can't open the image.
>>
>>   On Sun, 23 Jun 2013, Rotem Saar wrote:
>>
>> Hi there,
>>
>> Long time:). Well I wrote to the list several times
>> regarding high FA values
>> I got when performing DTI analysis.
>> Today we know that the problem was an additional
>> direction (we had 17
>> directions instead of 16 - we used a Philips
>> scanner,1.5T). So we deleted
>> the additional slices and the high values indeed
>> disappeared, but then
>> another problem came up (tried several subjects so
>> the problem is not
>> specific to a subject) -
>>
>> I noticed an artifact that I can't explain - please
>> see the attached
>> pictures.
>>
>> This artifact existed even before I deleted the
>> additional slices, also - I
>> see the artifact also when loading the masked
>> volume...It is cyclic - run
>> over all slices...
>>
>> any ideas ?
>>
>> I'm using version 5.2 and I know the command lines
>> are correct (send it to u
>> in the past).
>>
>> Thanks for your help
>>
>> Rotem
>>
>>
>>
>>
>> The information in this e-mail is intended only for the person to whom
>> it is
>> addressed. If you believe this e-mail was sent to you in error and the
>> e-mail
>> contains patient information, please contact the Partners Compliance
>> HelpLine at
>> http://www.partners.org/**complianceline.
>>  If the e-mail was sent to you
>> in error
>> but does not contain patient information, please contact the sender
>> and properly
>> dispose of the e-mail.
>>
>>
>>
>>
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The information in this e-mail is intended only for the person to whom it is
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contains patient information, please contact the Partners Compliance HelpLine at
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Re: [Freesurfer] Fwd: DTI questions

[Anastasia Yendiki]

Hi Rotem - No problem. Were these scans by any chance acquired with a 
coronal slice prescription? In the axial views that you sent, the artifact 
that you're pointing to looks like misalignment between consecutive 
coronal slices, which could be due to head motion.


a.y

On Tue, 25 Jun 2013, Rotem Saar wrote:


Dear Anastasia,
 
I tried several times to upload these images in a non-compressed way, but
they were too big and my posts were rejected, with no opportunity for any
other upload way.
Is there any other way for me to upload it so that everyone can see it ?
 
Attached are the images in a non-compressed fashion. I will be very happy if
u will have a look, and post your answer to me and the list to save some
time, until I will be able to consider another way to upload them.
 
I know that we should write to all the list, but at the moment if the images
are not visible this won't help - so I will really appreciate if u will have
a look but also tell me what is the best way to upload them so that all list
members will be able to see them.
 
Thank u very much for your help.
 
Rotem

2013/6/25 Anastasia Yendiki 

  Sorry, can't open the image.

  On Sun, 23 Jun 2013, Rotem Saar wrote:

Hi there,

Long time:). Well I wrote to the list several times
regarding high FA values
I got when performing DTI analysis.
Today we know that the problem was an additional
direction (we had 17
directions instead of 16 - we used a Philips
scanner,1.5T). So we deleted
the additional slices and the high values indeed
disappeared, but then
another problem came up (tried several subjects so
the problem is not
specific to a subject) -

I noticed an artifact that I can't explain - please
see the attached
pictures.

This artifact existed even before I deleted the
additional slices, also - I
see the artifact also when loading the masked
volume...It is cyclic - run
over all slices...

any ideas ?
 
I'm using version 5.2 and I know the command lines
are correct (send it to u
in the past).

Thanks for your help

Rotem




The information in this e-mail is intended only for the person to whom
it is
addressed. If you believe this e-mail was sent to you in error and the
e-mail
contains patient information, please contact the Partners Compliance
HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you
in error
but does not contain patient information, please contact the sender
and properly
dispose of the e-mail.



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The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
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but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] Fwd: DTI questions

[Anastasia Yendiki]

Sorry, can't open the image.

On Sun, 23 Jun 2013, Rotem Saar wrote:


Hi there,

Long time:). Well I wrote to the list several times regarding high FA values
I got when performing DTI analysis.
Today we know that the problem was an additional direction (we had 17
directions instead of 16 - we used a Philips scanner,1.5T). So we deleted
the additional slices and the high values indeed disappeared, but then
another problem came up (tried several subjects so the problem is not
specific to a subject) -

I noticed an artifact that I can't explain - please see the attached
pictures.

This artifact existed even before I deleted the additional slices, also - I
see the artifact also when loading the masked volume...It is cyclic - run
over all slices...

any ideas ?
 
I'm using version 5.2 and I know the command lines are correct (send it to u
in the past).

Thanks for your help

Rotem

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The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.