Hi,
How can I find the following information from the MRI volume data already preprocessed with Freesurfer.
1. Echo time
2. Repetition time
3. Flip angle
Thank you.
Best Regards, Muhammad Naveed Iqbal Qureshi
P please don't print this e-mail unless you really need to
use mri_info
cheers Bruce On Mon, 18 Apr 2016, Muhammad Naveed Iqbal Qureshi wrote:
Hi,
How can I find the following information from the MRI volume data already preprocessed with Freesurfer.
1. Echo time
2. Repetition time
3. Flip angle
Thank you.
Best Regards, Muhammad Naveed Iqbal Qureshi
P please don't print this e-mail unless you really need to
Hi Bruce,
I just ran it out of curiosity on T1w 3D-MPRAGE images from a Siemens scanner which has been converted to nifti using dcm2nii and I got this:
TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees
Which doesn't look correct? any comments?
Thanks, Mahmoud
On Mon, Apr 18, 2016 at 11:38 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
use mri_info
cheers Bruce
On Mon, 18 Apr 2016, Muhammad Naveed Iqbal Qureshi wrote:
Hi,
How can I find the following information from the MRI volume data already preprocessed with Freesurfer.
Echo timeRepetition timeFlip angleThank you.
Best Regards, Muhammad Naveed Iqbal Qureshi
P please don't print this e-mail unless you really need to
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
Hi Mahmoud
nifti doesn't have slots for these parameters so converting through nifti will lose them. Try running it on one slice in the right dicom series
cheers Bruce
On Mon, 18 Apr 2016, Mahmoud wrote:
Hi Bruce, I just ran it out of curiosity on T1w 3D-MPRAGE images from a Siemens scanner which has been converted to nifti using dcm2nii and I got this:
TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees
Which doesn't look correct? any comments?
Thanks, Mahmoud
On Mon, Apr 18, 2016 at 11:38 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: use mri_info
cheers Bruce On Mon, 18 Apr 2016, Muhammad Naveed Iqbal Qureshi wrote: Hi, How can I find the following information from the MRI volume data already preprocessed with Freesurfer. 1. Echo time 2. Repetition time 3. Flip angle Thank you. Best Regards, Muhammad Naveed Iqbal Qureshi P please don't print this e-mail unless you really need to
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
The nifti format is bad, and lacks that data, this will only work on mgz files or dicoms.
hth d
On Mon, Apr 18, 2016 at 11:54 AM, Mahmoud zeydabadi@gmail.com wrote:
Hi Bruce,
I just ran it out of curiosity on T1w 3D-MPRAGE images from a Siemens scanner which has been converted to nifti using dcm2nii and I got this:
TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 degrees
Which doesn't look correct? any comments?
Thanks, Mahmoud
On Mon, Apr 18, 2016 at 11:38 AM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
use mri_info
cheers Bruce
On Mon, 18 Apr 2016, Muhammad Naveed Iqbal Qureshi wrote:
Hi,
How can I find the following information from the MRI volume data already preprocessed with Freesurfer.
Echo timeRepetition timeFlip angleThank you.
Best Regards, Muhammad Naveed Iqbal Qureshi
P please don't print this e-mail unless you really need to
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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.
freesurfer@nmr.mgh.harvard.edu
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Bruce Fischl -
dgw -
Mahmoud -
Muhammad Naveed Iqbal Qureshi