Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2?
Best regards, Amirhossein Manzouri
so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug
On 02/18/2016 12:16 PM, amirhossein manzouri wrote:
Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2?
Best regards, Amirhossein Manzouri
Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation.
On Thursday, 18 February 2016, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug
On 02/18/2016 12:16 PM, amirhossein manzouri wrote:
Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2?
Best regards, Amirhossein Manzouri
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
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 Amirhossein, I can't tell from below if you have a question or not
On 02/18/2016 05:32 PM, amirhossein manzouri wrote:
Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation.
On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2? Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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.-- Best regards, Amirhossein Manzouri
I just wanted to clarify a bit more to see if makes more sense now ?
On Thursday, 18 February 2016, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
Hi Amirhossein, I can't tell from below if you have a question or not
On 02/18/2016 05:32 PM, amirhossein manzouri wrote:
Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation.
On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2? Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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.-- Best regards, Amirhossein Manzouri
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
Hmmm, I think I'm more confused. what do you mean by "mean thickness of ROI from longitudinal group comparison"? You are looking at how the thickness across cortex correlates with the mean thickness in your ROI?
On 02/18/2016 05:50 PM, amirhossein manzouri wrote:
I just wanted to clarify a bit more to see if makes more sense now ?
On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Hi Amirhossein, I can't tell from below if you have a question or not On 02/18/2016 05:32 PM, amirhossein manzouri wrote: Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation. On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2? Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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. -- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/-- Best regards, Amirhossein Manzouri
Yes, I extracted the mean thickness of the ROI label from each timepoint to use it as a continuous variable and study the correlation of whole brain thickness with this region, is this ok?
On Friday, 19 February 2016, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
Hmmm, I think I'm more confused. what do you mean by "mean thickness of ROI from longitudinal group comparison"? You are looking at how the thickness across cortex correlates with the mean thickness in your ROI?
On 02/18/2016 05:50 PM, amirhossein manzouri wrote:
I just wanted to clarify a bit more to see if makes more sense now ?
On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Hi Amirhossein, I can't tell from below if you have a question or not On 02/18/2016 05:32 PM, amirhossein manzouri wrote: Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation. On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2? Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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 sentto you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
-- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/-- Best regards, Amirhossein Manzouri
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
I think so. Just make sure you don't try to draw conclusions from the ROI or area around it.
On 2/19/16 2:02 AM, amirhossein manzouri wrote:
Yes, I extracted the mean thickness of the ROI label from each timepoint to use it as a continuous variable and study the correlation of whole brain thickness with this region, is this ok?
On Friday, 19 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Hmmm, I think I'm more confused. what do you mean by "mean thickness of ROI from longitudinal group comparison"? You are looking at how the thickness across cortex correlates with the mean thickness in your ROI? On 02/18/2016 05:50 PM, amirhossein manzouri wrote: I just wanted to clarify a bit more to see if makes more sense now ? On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: Hi Amirhossein, I can't tell from below if you have a question or not On 02/18/2016 05:32 PM, amirhossein manzouri wrote: Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation. On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2? Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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. -- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ -- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/-- Best regards, Amirhossein Manzouri
Of course. Just another question to make sure I understand your answer correctly. What you suggested with the fsgd file and contrast is the same as running Qdec on the two time points as two groups and ROI as variable in the dec table and then select the ROI as continuous and group as discreet with DODS, right?
Best regards, Amirhossein Manzouri
On Fri, Feb 19, 2016 at 4:28 PM, Douglas Greve greve@nmr.mgh.harvard.edu wrote:
I think so. Just make sure you don't try to draw conclusions from the ROI or area around it.
On 2/19/16 2:02 AM, amirhossein manzouri wrote:
Yes, I extracted the mean thickness of the ROI label from each timepoint to use it as a continuous variable and study the correlation of whole brain thickness with this region, is this ok?
On Friday, 19 February 2016, Douglas N Greve < greve@nmr.mgh.harvard.edu greve@nmr.mgh.harvard.edu> wrote:
Hmmm, I think I'm more confused. what do you mean by "mean thickness of ROI from longitudinal group comparison"? You are looking at how the thickness across cortex correlates with the mean thickness in your ROI?
On 02/18/2016 05:50 PM, amirhossein manzouri wrote:
I just wanted to clarify a bit more to see if makes more sense now ?
On Thursday, 18 February 2016, Douglas N Greve < greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
Hi Amirhossein, I can't tell from below if you have a question ornot
On 02/18/2016 05:32 PM, amirhossein manzouri wrote: Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation. On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between"groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug
On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurementand cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2?
Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.htmlOutgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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 sentto you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
-- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/-- Best regards, Amirhossein Manzouri
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
-- Best regards, Amirhossein Manzouri
right
On 2/19/16 10:48 AM, amirhossein manzouri wrote:
Of course. Just another question to make sure I understand your answer correctly. What you suggested with the fsgd file and contrast is the same as running Qdec on the two time points as two groups and ROI as variable in the dec table and then select the ROI as continuous and group as discreet with DODS, right?
Best regards, Amirhossein Manzouri
On Fri, Feb 19, 2016 at 4:28 PM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:
I think so. Just make sure you don't try to draw conclusions from the ROI or area around it. On 2/19/16 2:02 AM, amirhossein manzouri wrote:Yes, I extracted the mean thickness of the ROI label from each timepoint to use it as a continuous variable and study the correlation of whole brain thickness with this region, is this ok? On Friday, 19 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: Hmmm, I think I'm more confused. what do you mean by "mean thickness of ROI from longitudinal group comparison"? You are looking at how the thickness across cortex correlates with the mean thickness in your ROI? On 02/18/2016 05:50 PM, amirhossein manzouri wrote: I just wanted to clarify a bit more to see if makes more sense now ? On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu> <mailto:greve@nmr.mgh.harvard.edu>> wrote: Hi Amirhossein, I can't tell from below if you have a question or not On 02/18/2016 05:32 PM, amirhossein manzouri wrote: Hi and thanks, tp1 is before and tp2 after treatment, and the measurement is the mean thickness of ROI from longitudinal group comparison, so we basically want to see effect of treatment on cortico cortical correlation. On Thursday, 18 February 2016, Douglas N Greve <greve@nmr.mgh.harvard.edu <mailto:greve@nmr.mgh.harvard.edu>> wrote: so you want to test whether the cross-sectional slope changes across time? That is unusual, but you can do it by specifying two classes in the FSGD file, one for each time point. Also specify a variable which is your measurement. Then create a contrast 0 0 1 -1. This will test whether the slopes change between "groups", where a "group" is the given time point. This analysis does not make sense to me, but that is how to do it. doug On 02/18/2016 12:16 PM, amirhossein manzouri wrote: Hi, We would like to run paired t-test on longitudinal within group data for correlation analysis of one measurement and cortical thickness, not cortical thickness comparison at the respective time point . I found the paired analysis and read that but in fact we need to see if correlation between our measure and CTH differs from time point one to time point 2. So the question will does the thickness and measure1 correlation differs between time point1 and tp2? Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ 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. -- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ -- Best regards, Amirhossein Manzouri -- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 <tel:617-724-2358> Fax: 617-726-7422 <tel:617-726-7422> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ -- Best regards, Amirhossein Manzouri
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