Hello,
we are trying to use covariates while calculating a rmANOVA as described in
https://surfer.nmr.mgh.harvard.edu/fswiki/RepeatedMeasuresAnova. Is this
technically possible with freesurfer?
Thank you, best regards, René
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Freesurfer mailing list
Thanks for your good points, Antonin.
More on the matter:
When segmenting standard resolution (~ 1mm) T1 scans, the position of the
internal boundaries between the hippocampal substructures largely relies on
prior knowledge acquired from our ex vivo training data and summarized in our
statisti
Hi Chris
are you talking about recon-all -hires ...? That has worked for me without
cropping to 256.
cheers
Bruce
On Fri, 13 Jan 2017, Chris Adamson wrote:
In the git version I’m trying to use the -hires option on an image. It
initially says that I need the cw256 option to restrict the FO
Hi Derek - Thanks for testing the 6.0 release candidate. Does it keep running
after this message? Since this is a warning and not an error, it may not be
critical. If you run mri_info on your dwi.nii.gz, does the TE show up as zero?
Best,
a.y
From: freesurfer-bo
Good morning,
I’m experiencing issues importing data into QDEC. When I upload the table, this
is the error I receive:
Loading data table /Applications/freesurfer/subjects/qdec/qdec.table.dat...
Number of columns: 10
fsid column:1
Number of factors: 9
Number of subjects: 19
ERROR: QdecSu
Hi Martin,
Thank you for the clarification. I assume this participant should be
removed? As a rule of thumb, should I exclude participants who have a
total of 3% scaling? Is there a way to check potential scaling problems
(e.g. looking into the recon-all.log to see scaling or checking alignment
b
On 01/12/2017 05:20 PM, John Anderson wrote:
> Thank you very much Doug and thank you for briniging the issue of
> "partial volume effect " to my attention. Kindly, I have one last
> question.
> I found in wiki that the default values for projfrc value are between
> 0 and 1. Are there negative
I'm not sure that QDEC can read in a CSV file. Can you remove the commas
and try again? You'll also have to remove the spaces between column headings
On 01/13/2017 10:55 AM, Paul Rowley wrote:
> Good morning,
> I’m experiencing issues importing data into QDEC. When I upload the table,
> this is
It was the spaces! Thanks for the help
On Jan 13, 2017, at 11:40 AM, Douglas N Greve
mailto:gr...@nmr.mgh.harvard.edu>> wrote:
I'm not sure that QDEC can read in a CSV file. Can you remove the commas
and try again? You'll also have to remove the spaces between column headings
On 01/13/2017 10:5
Thank you very much Doug,
Kindly, do you suggest me any steps to avoid patial volume effects in surface based analyses ?
Best,
John
Sent: Friday, January 13, 2017 at 12:21 PM
From: "Douglas N Greve"
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] surface based analysis (proj
What is the modality you are looking at?
On 01/13/2017 02:08 PM, John Anderson wrote:
> Thank you very much Doug,
> Kindly, do you suggest me any steps to avoid patial volume effects in
> surface based analyses ?
> Best,
> John
> *Sent:* Friday, January 13, 2017 at 12:21 PM
> *From:* "Douglas N
I am working on surface-based analysis to study the differnce in PET signal in the cortex between two groups.
When I used "projfrac=0.5 " there was no differnce between the groups at "cwp 0.05", and when I changed the "projfrac to 0" I got significant differnce between the groups in specific areas
These differences are hard to track down because they are so subtle.
You may want to use our PET module, which includes PVC
http://surfer.nmr.mgh.harvard.edu/fswiki/PetSurfer
On 01/13/2017 03:10 PM, John Anderson wrote:
> I am working on surface-based analysis to study the differnce in PET
> s
Thank you Doug for the advice ,
I will follow your pipeline, I see that the command "gtmseg " is part of Freesurfer 6. Can I apply it on recons generated by Freesurfer 5.3 ?
Best,
John
Sent: Friday, January 13, 2017 at 3:16 PM
From: "Douglas N Greve"
To: freesurfer@nmr.mgh.harvard.edu
Sub
Yes
On 01/13/2017 03:28 PM, John Anderson wrote:
> Thank you Doug for the advice ,
> I will follow your pipeline, I see that the command "gtmseg " is part
> of Freesurfer 6. Can I apply it on recons generated by Freesurfer 5.3 ?
> Best,
> John
> *Sent:* Friday, January 13, 2017 at 3:16 PM
> *Fr
Dear Freesurfer users,
I have a question on the 'aparc.stats' file output:
Which of your label corresponds to:
Ventro and Dorso Lateral Prefrontal Cortex?
Supplementary motor areas?
Putamen?
Angular Gyrus?
Thank you for your help
Sincerely,
Marianna
Dear FreeSurfer experts,
Thankyou so much for your prompt and comprehensive responses! They are
excellent and will definitely guide me in how to respond to the Reviewers
of my manuscript.
Kind regards,
Jerome
On 14 January 2017 at 01:03, Iglesias Gonzalez, Eugenio <
e.igles...@ucl.ac.uk> wrote
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