Hi,
I just want to confirm, is that I can use the new trac-all with the data processed in the original FS5.3 trac-all?
And, I just want to download the new trac-all, but I have problem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise.
Best, Clive
Hi Clive - Yes, you can use the recent tracula update on top your already processed data. The new update only adds new functionality to trac-all, without changing any of the existing functionality in 5.3.
Did you try downloading the update from here? http://surfer.nmr.mgh.harvard.edu/fswiki/Tracula#Updates
a.y
On Sun, 9 Feb 2014, Clive Wong wrote:
Hi, I just want to confirm, is that I can use the new trac-all with the data processed in the original FS5.3 trac-all?
And, I just want to download the new trac-all, but I have problem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise.
Best, Clive
Dear Anastasia,
Thanks very much. I have already downloaded the file. The wiki page was also down a few hours ago, but it's ok now.
And I am interested in the tracula group stat. How could I use mri_glmfit on the text file? And can I use the QDEC (or the contrast generated by QDEC) to do the glm?
Thanks Clive
On Mon, Feb 10, 2014 at 6:13 AM, Anastasia Yendiki < ayendiki@nmr.mgh.harvard.edu> wrote:
Hi Clive - Yes, you can use the recent tracula update on top your already processed data. The new update only adds new functionality to trac-all, without changing any of the existing functionality in 5.3.
Did you try downloading the update from here? http://surfer.nmr.mgh.harvard.edu/fswiki/Tracula#Updates
a.y
On Sun, 9 Feb 2014, Clive Wong wrote:
Hi,
I just want to confirm, is that I can use the new trac-all with the data processed in the original FS5.3 trac-all?
And, I just want to download the new trac-all, but I have problem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise.
Best, Clive
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 Clive - These are not stats in the volume or on the surface, so mri_glmfit doesn't apply. If you want to do group analyses along a tract on a table produced by trac-all -stat, you should import the table in any software that you use for statistics (matlab, SPSS, etc).
Best, a.y
On Mon, 10 Feb 2014, Clive Wong wrote:
Dear Anastasia, Thanks very much. I have already downloaded the file. The wiki page was also down a few hours ago, but it's ok now.
And I am interested in the tracula group stat. How could I use mri_glmfit on the text file? And can I use the QDEC (or the contrast generated by QDEC) to do the glm?
Thanks Clive
On Mon, Feb 10, 2014 at 6:13 AM, Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu wrote:
Hi Clive - Yes, you can use the recent tracula update on top your already processed data. The new update only adds new functionality to trac-all, without changing any of the existing functionality in 5.3. Did you try downloading the update from here? http://surfer.nmr.mgh.harvard.edu/fswiki/Tracula#Updates a.y On Sun, 9 Feb 2014, Clive Wong wrote: Hi, I just want to confirm, is that I can use the new trac-all with the data processed in the original FS5.3 trac-all? And, I just want to download the new trac-all, but I have problem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise. Best, CliveThe 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.
Thanks Anastasia. I ask that because in the tracula stat page, it saids *"Measures can be extracted from these files to be analyzed further, e.g., for tract-based group analysis. Specifically, the text files can be converted into a table using the command tractstats2table and then used for doing GLM analyses with mri_glmfit or any other statistical software (SPSS, Excel, Statview etc.)"*. So I think I may reuse the GLM matrix.
Best, Clive
On Tue, Feb 11, 2014 at 8:29 AM, Anastasia Yendiki < ayendiki@nmr.mgh.harvard.edu> wrote:
Hi Clive - These are not stats in the volume or on the surface, so mri_glmfit doesn't apply. If you want to do group analyses along a tract on a table produced by trac-all -stat, you should import the table in any software that you use for statistics (matlab, SPSS, etc).
Best, a.y
On Mon, 10 Feb 2014, Clive Wong wrote:
Dear Anastasia,
Thanks very much. I have already downloaded the file. The wiki page was also down a few hours ago, but it's ok now.
And I am interested in the tracula group stat. How could I use mri_glmfit on the text file? And can I use the QDEC (or the contrast generated by QDEC) to do the glm?
Thanks Clive
On Mon, Feb 10, 2014 at 6:13 AM, Anastasia Yendiki < ayendiki@nmr.mgh.harvard.edu> wrote:
Hi Clive - Yes, you can use the recent tracula update on top youralready processed data. The new update only adds new functionality to trac-all, without changing any of the existing functionality in 5.3.
Did you try downloading the update from here? http://surfer.nmr.mgh.harvard.edu/fswiki/Tracula#Updates a.y On Sun, 9 Feb 2014, Clive Wong wrote: Hi, I just want to confirm, is that I can use the new trac-allwith the data processed in the original FS5.3 trac-all?
And, I just want to download the new trac-all, but I haveproblem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise.
Best, CliveThe 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 Clive - So you are talking about the overall tract stats, averaged over the whole tract (and not the stats by position on the tract that trac-all -stat outputs). That phrase in the tutorial is not very clear - these could be used as a covariate in mri_glmfit, but the main input of mri_glmfit is on a surface or volume. These stats (e.g., average FA of the uncinate fasciculus) are only one value per subject.
Hope this helps, a.y
On Tue, 11 Feb 2014, Clive Wong wrote:
Thanks Anastasia. I ask that because in the tracula stat page, it saids "Measures can be extracted from these files to be analyzed further, e.g., for tract-based group analysis. Specifically, the text files can be converted into a table using the command tractstats2table and then used for doing GLM analyses with mri_glmfit or any other statistical software (SPSS, Excel, Statview etc.)". So I think I may reuse the GLM matrix. Best, Clive
On Tue, Feb 11, 2014 at 8:29 AM, Anastasia Yendiki ayendiki@nmr.mgh.harvard.edu wrote:
Hi Clive - These are not stats in the volume or on the surface, so mri_glmfit doesn't apply. If you want to do group analyses along a tract on a table produced by trac-all -stat, you should import the table in any software that you use for statistics (matlab, SPSS, etc). Best, a.y On Mon, 10 Feb 2014, Clive Wong wrote: Dear Anastasia, Thanks very much. I have already downloaded the file. The wiki page was also down a few hours ago, but it's ok now. And I am interested in the tracula group stat. How could I use mri_glmfit on the text file? And can I use the QDEC (or the contrast generated by QDEC) to do the glm? Thanks Clive On Mon, Feb 10, 2014 at 6:13 AM, Anastasia Yendiki <ayendiki@nmr.mgh.harvard.edu> wrote: Hi Clive - Yes, you can use the recent tracula update on top your already processed data. The new update only adds new functionality to trac-all, without changing any of the existing functionality in 5.3. Did you try downloading the update from here? http://surfer.nmr.mgh.harvard.edu/fswiki/Tracula#Updates a.y On Sun, 9 Feb 2014, Clive Wong wrote: Hi, I just want to confirm, is that I can use the new trac-all with the data processed in the original FS5.3 trac-all? And, I just want to download the new trac-all, but I have problem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise. Best, Clive 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.
Dear Anastasia,
Thank you very much for the clarification.
Best, Clive
On Thu, Feb 13, 2014 at 8:52 AM, Anastasia Yendiki < ayendiki@nmr.mgh.harvard.edu> wrote:
Hi Clive - So you are talking about the overall tract stats, averaged over the whole tract (and not the stats by position on the tract that trac-all -stat outputs). That phrase in the tutorial is not very clear - these could be used as a covariate in mri_glmfit, but the main input of mri_glmfit is on a surface or volume. These stats (e.g., average FA of the uncinate fasciculus) are only one value per subject.
Hope this helps, a.y
On Tue, 11 Feb 2014, Clive Wong wrote:
Thanks Anastasia. I ask that because in the tracula stat page, it saids
"Measures can be extracted from these files to be analyzed further, e.g., for tract-based group analysis. Specifically, the text files can be converted into a table using the command tractstats2table and then used for doing GLM analyses with mri_glmfit or any other statistical software (SPSS, Excel, Statview etc.)". So I think I may reuse the GLM matrix. Best, Clive
On Tue, Feb 11, 2014 at 8:29 AM, Anastasia Yendiki < ayendiki@nmr.mgh.harvard.edu> wrote:
Hi Clive - These are not stats in the volume or on the surface, somri_glmfit doesn't apply. If you want to do group analyses along a tract on a table produced by trac-all -stat, you should import the table in any software that you use for statistics (matlab, SPSS, etc).
Best, a.y On Mon, 10 Feb 2014, Clive Wong wrote: Dear Anastasia, Thanks very much. I have already downloaded the file. Thewiki page was also down a few hours ago, but it's ok now.
And I am interested in the tracula group stat. How could Iuse mri_glmfit on the text file? And can I use the QDEC (or the contrast generated by QDEC) to do the glm?
Thanks Clive On Mon, Feb 10, 2014 at 6:13 AM, Anastasia Yendiki <ayendiki@nmr.mgh.harvard.edu> wrote:
Hi Clive - Yes, you can use the recent tracula updateon top your already processed data. The new update only adds new functionality to trac-all, without changing any of the existing functionality in 5.3.
Did you try downloading the update from here? http://surfer.nmr.mgh.harvard.edu/fswiki/Tracula#Updates
a.y On Sun, 9 Feb 2014, Clive Wong wrote: Hi, I just want to confirm, is that I can use the newtrac-all with the data processed in the original FS5.3 trac-all?
And, I just want to download the new trac-all,but I have problem to connect to the ftp server. I can login to the server, but it does not response to any command. Please advise.
Best, Clive The information in this e-mail is intended only for theperson 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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