Hi list,
which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed.
Thanks
Kind regards
Stefano
I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis?
On 04/18/2018 10:10 AM, stdp82@virgilio.it wrote:
Hi list,
which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed.
Thanks
Kind regards
Stefano
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Hi,
group analysis.
I would like to perform a simple correlation analysis within group, aiming to map the clusters reporting the correlation between the FC and the seed volume or neuropsychological test scores (e.g. MMSE). Overall, the morphometric measures and NPS test scores do not shown a normal distribution and, thus, parametric computation should be discouraged.
Thanks
Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it wrote: > > >Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >_______________________________________________ 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.
External Email - Use Caution
Hi,
I'm performing a group analysis.
I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged.
Thanks
Stefano
> >Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it wrote: > > > >Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >_______________________________________________ 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.
Try permutation
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0P...
On 4/24/18 8:21 AM, stdp82@virgilio.it wrote:
Hi,
I'm performing a group analysis.
I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged.
Thanks
Stefano
Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it wrote: > Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ 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.
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I'm running the follow command lines:
1) mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save
2) mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs --cwp 0.05 --bg 1 --3spaces
the computation N.2 (mri_glmfit-sim) is going ahead from two days... ...Poll 16733 job 1 Sun Apr 29 15:58:41 CEST 2018
I'm suspecting that some what in command lines is wrong...
Please could you check it?
Do you think that for my experimental question (I aiming to perform a within group correlatation between the thickness or FC and MMSE scores) should I use also PALM within mri_glmfit-sim computation?
Thanks
Best regards
Stefano
Il 24 aprile 2018 alle 19.39 Douglas Greve dgreve@mgh.harvard.edu ha scritto:
Try permutation http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm On 4/24/18 8:21 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > >Hi, I'm performing a group analysis. I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged. Thanks Stefano > > >> > > >Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> mailto:dgreve@mgh.harvard.edu ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > > > > > >Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > >_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto: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 mailto: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.
External Email - Use Caution
Hi list,
I'm running the follow command lines:
1) mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save
2) mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs --cwp 0.05 --bg 1 --3spaces
the computation N.2 (mri_glmfit-sim) is going ahead from two days...
...Poll 16733 job 1 Sun Apr 29 15:58:41 CEST 2018
I'm suspecting that some what in command lines is wrong... Please could you check it?
Do you think that for my experimental question (I aiming to perform a within group correlatation between the thickness or FC and MMSE scores) should I use also PALM within mri_glmfit-sim computation?
Thanks
Best regards
Stefano
Il 24 aprile 2018 alle 19.39 Douglas Greve dgreve@mgh.harvard.edu ha scritto:
Try permutation http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm On 4/24/18 8:21 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > >Hi, I'm performing a group analysis. I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged. Thanks Stefano > > >> > > >Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> mailto:dgreve@mgh.harvard.edu ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote: > > > > > >Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto:Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > >_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto: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 mailto: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.
It looks right. How many subjects do you have? You can also check on the progress by looking at the csd files in the glmdir/csd folder
On 05/03/2018 11:30 AM, stdp82@virgilio.it wrote:
Hi list,
I'm running the follow command lines:
- mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir
MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save
- mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs --cwp 0.05
--bg 1 --3spaces
the computation N.2 (mri_glmfit-sim) is going ahead from two days...
...Poll 16733 job 1 Sun Apr 29 15:58:41 CEST 2018
I'm suspecting that some what in command lines is wrong... Please could you check it?
Do you think that for my experimental question (I aiming to perform a within group correlatation between the thickness or FC and MMSE scores) should I use also PALM within mri_glmfit-sim computation?
Thanks
Best regards
Stefano
Il 24 aprile 2018 alle 19.39 Douglas Greve dgreve@mgh.harvard.edu ha scritto:
Try permutation
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0P...
On 4/24/18 8:21 AM, stdp82@virgilio.it mailto:stdp82@virgilio.it wrote:
Hi,
I'm performing a group analysis.
I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged.
Thanks
Stefano
Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> <mailto:dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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 mailto: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.
External Email - Use Caution
Thanks.
I have about 40 subjects. The last run went ahead for five days. I have killed it.
What's do you think about the use of PALM in my study (details are listed in previous mails)?
Best regards,
Stefano
Il 7 maggio 2018 alle 19.48 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: It looks right. How many subjects do you have? You can also check on the progress by looking at the csd files in the glmdir/csd folder On 05/03/2018 11:30 AM, stdp82@virgilio.it wrote: > > >Hi list, I'm running the follow command lines: 1) mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save 2) mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs --cwp 0.05 --bg 1 --3spaces the computation N.2 (mri_glmfit-sim) is going ahead from two days... ...Poll 16733 job 1 Sun Apr 29 15:58:41 CEST 2018 I'm suspecting that some what in command lines is wrong... Please could you check it? Do you think that for my experimental question (I aiming to perform a within group correlatation between the thickness or FC and MMSE scores) should I use also PALM within mri_glmfit-sim computation? Thanks Best regards Stefano > > >Il 24 aprile 2018 alle 19.39 Douglas Greve <dgreve@mgh.harvard.edu> ha scritto: Try permutation http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm On 4/24/18 8:21 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > > > > > >Hi, I'm performing a group analysis. I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged. Thanks Stefano > > > > > >Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> <mailto:dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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 <mailto: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 mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
It should not have taken that long. If you want me to look, you can tar up the glmdir and send it to me on our filedrop (below). You can also use PALM. I've created a tool to assist in the interface
http://freesurfer.net/fswiki/FsPalm
On 05/07/2018 04:20 PM, stdp82@virgilio.it wrote:
Thanks.
I have about 40 subjects. The last run went ahead for five days. I have killed it.
What's do you think about the use of PALM in my study (details are listed in previous mails)?
Best regards,
Stefano
Il 7 maggio 2018 alle 19.48 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: It looks right. How many subjects do you have? You can also check on the progress by looking at the csd files in the glmdir/csd folder On 05/03/2018 11:30 AM, stdp82@virgilio.it wrote: > Hi list, I'm running the follow command lines: 1) mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save 2) mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs --cwp 0.05 --bg 1 --3spaces the computation N.2 (mri_glmfit-sim) is going ahead from two days... ...Poll 16733 job 1 Sun Apr 29 15:58:41 CEST 2018 I'm suspecting that some what in command lines is wrong... Please could you check it? Do you think that for my experimental question (I aiming to perform a within group correlatation between the thickness or FC and MMSE scores) should I use also PALM within mri_glmfit-sim computation? Thanks Best regards Stefano Il 24 aprile 2018 alle 19.39 Douglas Greve <dgreve@mgh.harvard.edu> ha scritto: Try permutation http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm On 4/24/18 8:21 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > > Hi, I'm performing a group analysis. I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged. Thanks Stefano > Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> <mailto:dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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 <mailto: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 mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
External Email - Use Caution
Thanks.
I have sent you the tar by FileDrop.
Stefano
Il 7 maggio 2018 alle 22.23 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: It should not have taken that long. If you want me to look, you can tar up the glmdir and send it to me on our filedrop (below). You can also use PALM. I've created a tool to assist in the interface http://freesurfer.net/fswiki/FsPalm On 05/07/2018 04:20 PM, stdp82@virgilio.it wrote: > > > >Thanks. I have about 40 subjects. The last run went ahead for five days. I have killed it. What's do you think about the use of PALM in my study (details are listed in previous mails)? Best regards, Stefano Il 7 maggio 2018 alle 19.48 "Douglas N. Greve" <dgreve@mgh.harvard.edu> ha scritto: It looks right. How many subjects do you have? You can also check on the progress by looking at the csd files in the glmdir/csd folder On 05/03/2018 11:30 AM, stdp82@virgilio.it wrote: > Hi list, I'm running the follow command lines: 1) mri_glmfit --y ces.nii.gz --cortex --surf fsaverage rh --glmdir MMSE.wls --nii.gz --fsgd g1v1_MMSE.fsgd dods --C intercept.mtx --C slope.mtx --eres-save 2) mri_glmfit-sim --glmdir MMSE.wls --perm 1000 2.0 abs --cwp 0.05 --bg 1 --3spaces the computation N.2 (mri_glmfit-sim) is going ahead from two days... ...Poll 16733 job 1 Sun Apr 29 15:58:41 CEST 2018 I'm suspecting that some what in command lines is wrong... Please could you check it? Do you think that for my experimental question (I aiming to perform a within group correlatation between the thickness or FC and MMSE scores) should I use also PALM within mri_glmfit-sim computation? Thanks Best regards Stefano Il 24 aprile 2018 alle 19.39 Douglas Greve <dgreve@mgh.harvard.edu> ha scritto: Try permutation http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/MultipleComparisonsV6.0Perm On 4/24/18 8:21 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > > Hi, I'm performing a group analysis. I would like to investigate a simple correlation analysis within group, aiming to map the clusters showing correlation between the FC and the neuropsychological test scores (e.g. MMSE). Overall, the NPS test have not a normal distribution of their scores and, thus, parametric computation should be discouraged. Thanks Stefano > Il 19 aprile 2018 alle 18.11 "Douglas N. Greve" <dgreve@mgh.harvard.edu> <mailto:dgreve@mgh.harvard.edu> ha scritto: I'm not sure what you mean. Can you elaborate? Is this an individual analysis or a group analysis? On 04/18/2018 10:10 AM, stdp82@virgilio.it <mailto:stdp82@virgilio.it> wrote: > Hi list, which the best way to perform a whole-brain correlation of the FC assessed by FS-FAST with the volumetic or neuropsychological outcomes? Please note that my question is specifically addressed to those factors (neuropsycholgical scores or volume of seed) did not show a normal distribution and that cannot be trasformed. Thanks Kind regards Stefano _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto: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 <mailto: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 mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Douglas Greve -
Douglas N. Greve
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stdp82＠virgilio.it