Thank you, Anderson. Regards.
VM On Thu, Feb 2, 2017 at 11:06 PM, Anderson M. Winkler <wink...@fmrib.ox.ac.uk > wrote: > Hi VM, > > They can stay all in the same .csv file. The "fwep" files will have > p-values corrected across all columns of this input. > > All the best, > > Anderson > > > On 2 February 2017 at 12:09, neuroimage analyst < > neuroimage.anal...@gmail.com> wrote: > >> Thanks, Anderson. If there are several other measures such as volume, >> thickness, FA, can I then put them in a single csv file and run the >> command or I have to create 3 csv files, one each for volume, thickness,and >> FA and also invoke -corrmod? >> >> Thanks >> >> Regards >> VM >> >> On Feb 2, 2017 1:01 AM, "Anderson M. Winkler" <wink...@fmrib.ox.ac.uk> >> wrote: >> >> Hi VM, >> >> Please see below: >> >> >> On 1 February 2017 at 02:38, neuroimage analyst < >> neuroimage.anal...@gmail.com> wrote: >> >>> Hi, >>> >>> We extracted volume measures from 7 ROIs in 2 groups and compared >>> a) Mean of each ROI volume between group, and compared independently >>> such as >>> i) whether mean of ROI 1 in group 1 is equal to mean of ROI1 in group 2 >>> ii)whether mean of ROI 2 in group 1 is equal to mean of ROI2 in group 2 >>> and so on >>> >> >> This means 7 comparisons, or 14 if you test both directions (tails) >> separately. >> >> >>> >>> b) Plotted the mean ROI volume for 2 independent measures and compared >>> whether the slope between and within group is significantly different. such >>> as >>> i) Slope of ROI1 is positively associated with MoCA , age (grp1) ? >>> ii) Slope of ROI1 is negatively associated with MoCA, age (grp2) ? >>> iii) Slope of ROI1 vs MoCA (grp1) is significantly different >>> than slope of ROI1 vs MoCA (grp2) ? >>> iv) Slope of ROI1 vs MoCA (grp2) is significantly different >>> than slope of ROI2 vs MoCA (grp2) ? >>> >> >> These sound tests for main effects and interaction, with various >> combinations possible. >> >> >>> >>> Q1) Do we have to perform multiple comparisons for (a) and (b)? >>> >> >> Yes. >> >> >> >>> Q2) If yes, do we correct across 7 measurements for (a) and 2 >>> measurements for (b) or 7 measurements for both (a) and (b)? >>> >> >> You could put the values for the 7 ROIs in a table in .csv format, with >> one column per ROI and one row per subject. This would be the input data. >> Create a design matrix as: >> >> EV1: 0 or 1 coding for group 1 >> EV2: 0 or 1 coding for group 2 >> EV3: MoCA group 1 >> EV4: MoCA group 2 >> EV5: Age group 1 >> EV6: Age group 2 >> etc >> >> Then define a set of contrasts such as: >> >> C1: [1 -1 0 0 0 0 ...] - This tests if mean for group 1 > mean for group 2 >> C2: [-1 1 0 0 0 0 ...] - This tests if mean for group 1 < mean for group 2 >> C3: [0 0 1 -1 0 0 ...] - This tests if the slope for MoCA for group 1 > >> slope for MoCA for group 2 >> C4: [0 0 -1 1 0 0 ...] - This tests if the slope for MoCA for group 1 < >> slope for MoCA for group 2 >> C5: [0 0 1 0 0 0 ...] - This tests if slope for MoCA for group 1 > 0 >> C6: [0 0 -1 0 0 0 ...] - This tests if slope for MoCA for group 1 < 0 >> etc >> >> You'd run this analysis in PALM with something as: >> >> *palm -i input.csv -d design.mat -t design.con -corrcon -o myresults >> -logp* >> >> >> Hope this helps! >> >> All the best, >> >> Anderson >> >> >> >>> There is evidence to both performing and nonperforming multiple >>> comparisons In the literature. >>> >>> Any response (hopefully pointing to a literature) will be greatly >>> appreciated. >>> >>> Thanks >>> >>> Regards >>> >>> --VM >>> >>> _______________________________________________ >>> 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 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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