Hi Doug I'm looking at the effect of MJ usage, the effect of whetherthe subject has AHDH, and the interaction between MJ usage and ADHD our threshold is 1.3
i have attahced our qdec.table.dat file we are also looking at age and gender as covariates Jon Jon ----- Original Message ----- From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> To: "Jon Wieser" <wie...@uwm.edu>, Freesurfer@nmr.mgh.harvard.edu Sent: Tuesday, December 10, 2013 4:20:30 PM Subject: Re: [Freesurfer] qdec analysis with 2 covariates which contrast are you looking at in QDEC? Also, what is the voxel-wise threshold in QDEC? The value I gave in the command below is 1.3 but I got that from one of your CSD files. On 12/10/2013 05:10 PM, Jon Wieser wrote: > HI doug, > no, the summary files in the contrasts have the same # of cluster as the > columns in their OCN.dat \ > the 40 cluster are seen in qdec when I run the "find cluster" and Goto max" > button. most of these clusters go away in qdec when I run the montecarlo > simulation > > Jon > ----- Original Message ----- > From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> > To: "Jon Wieser" <wie...@uwm.edu> > Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> > Sent: Tuesday, December 10, 2013 4:03:06 PM > Subject: Re: [Freesurfer] qdec analysis with 2 covariates > > > So one of the contrasts has 40 clusters in the summary file but the > y.ocn.dat file only has a few columns? > > > On 12/10/2013 04:54 PM, Jon Wieser wrote: >> yes, that is what we want, but the files contain only 1-3 columns >> >> Jon >> >> ----- Original Message ----- >> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >> To: "Jon Wieser" <wie...@uwm.edu> >> Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> >> Sent: Tuesday, December 10, 2013 3:44:50 PM >> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >> >> >> There should be a column for each cluster in contrast. Is that what you >> want? >> >> >> On 12/10/2013 04:37 PM, Jon Wieser wrote: >>> thanks, >>> I ran >>> mri_glmfit-sim --glmdir MTA_ADHD_MJ --cache 1.3 abs >>> >>> MTA_ADHD_MJ is my project file and has the results from qdec in it >>> >>> >>> it has produced: >>> >>> lh-Avg-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> lh-Avg-thickness-Age-Cor/cache.th13.abs.y.ocn.dat >>> lh-Avg-thickness-Gender-Cor/cache.th13.abs.y.ocn.dat >>> lh-Diff-ADHD-nonADHD-Cor-thickness-Age/cache.th13.abs.y.ocn.dat >>> lh-Diff-ADHD-nonADHD-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> lh-Diff-ADHD-nonADHD-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> lh-Diff-MJnonuser-MJuser-Cor-thickness-Age/cache.th13.abs.y.ocn.dat >>> lh-Diff-MJnonuser-MJuser-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> lh-Diff-MJnonuser-MJuser-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> lh-X-ADHD-MJ_group-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> lh-X-ADHD-MJ_group-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> lh-X-MJ_group-ADHD-Cor-thickness-Age/cache.th13.abs.y.ocn.dat >>> lh-X-MJ_group-ADHD-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> lh-X-MJ_group-ADHD-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> rh-Avg-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> rh-Avg-thickness-Age-Cor/cache.th13.abs.y.ocn.dat >>> rh-Avg-thickness-Gender-Cor/cache.th13.abs.y.ocn.dat >>> rh-Diff-ADHD-nonADHD-Cor-thickness-Age/cache.th13.abs.y.ocn.dat >>> rh-Diff-ADHD-nonADHD-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> rh-Diff-ADHD-nonADHD-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> rh-Diff-MJnonuser-MJuser-Cor-thickness-Age/cache.th13.abs.y.ocn.dat >>> rh-Diff-MJnonuser-MJuser-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> rh-Diff-MJnonuser-MJuser-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> rh-X-MJ_group-ADHD-Cor-thickness-Age/cache.th13.abs.y.ocn.dat >>> rh-X-MJ_group-ADHD-Cor-thickness-Gender/cache.th13.abs.y.ocn.dat >>> rh-X-MJ_group-ADHD-Intercept-thickness/cache.th13.abs.y.ocn.dat >>> >>> >>> >>> these files have 120 rows. each row has a thickness value s >>> example >>> 2.71869 >>> 2.52448 >>> 2.50450 >>> 2.53677 >>> 2.58363 >>> 2.50404 >>> 2.42116 >>> 2.61757 >>> 2.51820 >>> 2.59009 >>> 2.42524 >>> 2.72043 >>> 2.59479 >>> 2.38014 >>> 2.41052 >>> 2.58483 >>> 2.49214 >>> 2.45870 >>> 2.51685 >>> 2.62981 >>> 2.59232 >>> >>> it appears that there is the thickness for each subject in the files >>> >>> I would like to have the thickness value, for each cluster, for every >>> subject >>> >>> we have 120 subjects, with about 40 clusters >>> Jon >>> >>> ----- Original Message ----- >>> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >>> To: "Jon Wieser" <wie...@uwm.edu> >>> Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> >>> Sent: Tuesday, December 10, 2013 2:30:31 PM >>> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >>> >>> >>> OK, sorry, I thought qdec was running a script called mri_glmfit-sim but >>> it appears to be running the correction internally. That means that you >>> will have to run mri_glmfit-sim yourself, something like >>> >>> mri_glmfit-sim --glmdir glmdir --cache 1.3 abs >>> >>> doug >>> >>> >>> On 12/10/2013 02:53 PM, Jon Wieser wrote: >>>> i have a mri_glmfit.log,(attached) but no cache.mri_glmfit-sim.log in >>>> the qdec output directory >>>> Jon >>>> >>>> >>>> ----- Original Message ----- >>>> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >>>> To: "Jon Wieser" <wie...@uwm.edu>, Freesurfer@nmr.mgh.harvard.edu >>>> Sent: Tuesday, December 10, 2013 1:42:37 PM >>>> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >>>> >>>> >>>> Is there a cache.mri_glmfit-sim.log in the output folder? Can you send >>>> it to me? Also, please remember to post to the list. thanks! >>>> doug >>>> >>>> >>>> On 12/10/2013 02:30 PM, Jon Wieser wrote: >>>>> FS version 5.3 >>>>> >>>>> ----- Original Message ----- >>>>> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >>>>> To: "Jon Wieser" <wie...@uwm.edu>, Freesurfer@nmr.mgh.harvard.edu >>>>> Sent: Tuesday, December 10, 2013 1:05:26 PM >>>>> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >>>>> >>>>> >>>>> hmmm, it should be there. What version of FS are you using? >>>>> >>>>> >>>>> >>>>> On 12/10/2013 12:57 PM, Jon Wieser wrote: >>>>>> i was getting the values for the command terminal, when I press the >>>>>> "find clusters and GOTo Max" button on the qdec GUI. >>>>>> there is no file named cache.th20.abs.y.dat or something similar. i did >>>>>> a "find" command to list all the *abs*.dat files in the directory >>>>>> >>>>>> qdec/MTA_ADHD_MJ/lh-Diff-MJnonuser-MJuser-Intercept-thickness/mc-z.abs.th13.pdf.dat >>>>>> qdec/MTA_ADHD_MJ/lh-X-ADHD-MJ_group-Intercept-thickness/mc-z.abs.th20.pdf.dat >>>>>> qdec/Untitled/lh-Avg-thickness-Age-Cor/mc-z.abs.th13.pdf.dat >>>>>> qdec/Untitled/lh-Avg-thickness-Gender-Cor/mc-z.abs.th13.pdf.dat >>>>>> qdec/Untitled/lh-Diff-ADHD-nonADHD-Intercept-thickness/mc-z.abs.th13.pdf.dat >>>>>> qdec/Untitled/lh-Diff-MJnonuser-MJuser-Intercept-thickness/mc-z.abs.th13.pdf.dat >>>>>> qdec/Untitled/lh-X-ADHD-MJ_group-Intercept-thickness/mc-z.abs.th13.pdf.dat >>>>>> >>>>>> >>>>>> >>>>>> >>>>>> these files contain: >>>>>> >>>>>> # CSD PDF/CDF >>>>>> # simtype null-z >>>>>> # anattype surface fsaverage lh >>>>>> # FixGroupSubjectArea 1 >>>>>> # merged 0 >>>>>> # contrast NA >>>>>> # seed 1271277527 >>>>>> # thresh 1.300000 >>>>>> # threshsign 0.000000 >>>>>> # searchspace 74612.965197 >>>>>> # nullfwhm 15.000000 >>>>>> # varfwhm -1.000000 >>>>>> # nrepetitions 10000 >>>>>> # NOTE: nreps and nrepetitions are both valid for volume data. >>>>>> # NOTE: nreps is invalid (-1) for surface data to assure. >>>>>> # NOTE: backwards INcompatibility. >>>>>> # $Id: volcluster.c,v 1.50.2.1 2011/03/28 15:32:36 greve Exp $ >>>>>> # nreps -1 >>>>>> # FixSurfClusterArea 1 >>>>>> # $Id: surfcluster.c,v 1.26.2.2 2011/11/10 16:01:11 greve Exp $ >>>>>> # nbins 100 >>>>>> # BinNo MaxClustBin MaxClustPDF MaxClustCDF GRFCDF MaxSigBin >>>>>> MaxSigPDF MaxSigCDF >>>>>> 0 204.826004 0.000500 0.999500 0.998289 >>>>>> 2.456050 0.000500 0.999500 >>>>>> 1 220.348267 0.001800 0.997700 0.996805 >>>>>> 2.811329 0.008100 0.991400 >>>>>> 2 235.870529 0.004300 0.993400 0.994388 >>>>>> 3.166609 0.022200 0.969200 >>>>>> 3 251.392792 0.007100 0.986300 0.990673 >>>>>> 3.521888 0.030300 0.938900 >>>>>> 4 266.915039 0.015600 0.970700 0.985251 >>>>>> 3.877167 0.028900 0.910000 >>>>>> 5 282.437317 0.017500 0.953200 0.977702 >>>>>> 4.232447 0.022600 0.887400 >>>>>> 6 297.959595 0.021400 0.931800 0.967628 >>>>>> 4.587726 0.015200 0.872200 >>>>>> 7 313.481842 0.033600 0.898200 0.954689 >>>>>> 4.943005 0.012300 0.859900 >>>>>> 8 329.004089 0.036100 0.862100 0.938634 >>>>>> 5.298285 0.009800 0.850100 >>>>>> 9 344.526367 0.038000 0.824100 0.919325 >>>>>> 5.653563 0.007300 0.842800 >>>>>> 10 360.048645 0.042500 0.781600 0.896747 6.008843 >>>>>> 0.009200 0.833600 >>>>>> 11 375.570892 0.050000 0.731600 0.871009 >>>>>> 6.364122 0.006900 0.826700 >>>>>> 12 391.093140 0.043400 0.688200 0.842332 >>>>>> 6.719401 0.007100 0.819600 >>>>>> 13 406.615417 0.047300 0.640900 0.811034 >>>>>> 7.074681 0.005500 0.814100 >>>>>> 14 422.137695 0.050700 0.590200 0.777508 >>>>>> 7.429960 0.005500 0.808600 >>>>>> 15 437.659943 0.047400 0.542800 0.742195 >>>>>> 7.785239 0.005200 0.803400 >>>>>> 16 453.182190 0.044100 0.498700 0.705560 >>>>>> 8.140518 0.004900 0.798500 >>>>>> 17 468.704468 0.042700 0.456000 0.668070 >>>>>> 8.495798 0.005100 0.793400 >>>>>> 18 484.226746 0.040600 0.415400 0.630176 >>>>>> 8.851077 0.006100 0.787300 >>>>>> 19 499.748962 0.034900 0.380500 0.592300 >>>>>> 9.206356 0.004800 0.782500 >>>>>> 20 515.271240 0.032200 0.348300 0.554820 >>>>>> 9.561636 0.003600 0.778900 >>>>>> 21 530.793518 0.031400 0.316900 0.518067 >>>>>> 9.916915 0.003400 0.775500 >>>>>> 22 546.315796 0.032400 0.284500 0.482320 >>>>>> 10.272194 0.004000 0.771500 >>>>>> 23 561.838013 0.023800 0.260700 0.447809 >>>>>> 10.627474 0.004800 0.766700 >>>>>> 24 577.360291 0.026100 0.234600 0.414711 >>>>>> 10.982753 0.004500 0.762200 >>>>>> 25 592.882568 0.022700 0.211900 0.383160 >>>>>> 11.338033 0.003300 0.758900 >>>>>> 26 608.404846 0.017500 0.194400 0.353244 >>>>>> 11.693312 0.003100 0.755800 >>>>>> 27 623.927063 0.018200 0.176200 0.325018 >>>>>> 12.048591 0.003700 0.752100 >>>>>> 28 639.449341 0.017400 0.158800 0.298504 >>>>>> 12.403871 0.003800 0.748300 >>>>>> 29 654.971619 0.014900 0.143900 0.273697 >>>>>> 12.759150 0.004400 0.743900 >>>>>> 30 670.493896 0.014200 0.129700 0.250569 >>>>>> 13.114429 0.003700 0.740200 >>>>>> 31 686.016113 0.014300 0.115400 0.229078 >>>>>> 13.469708 0.002800 0.737400 >>>>>> 32 701.538391 0.013100 0.102300 0.209165 >>>>>> 13.824987 0.003800 0.733600 >>>>>> 33 717.060669 0.011700 0.090600 0.190763 >>>>>> 14.180266 0.003700 0.729900 >>>>>> 34 732.582947 0.008500 0.082100 0.173798 >>>>>> 14.535546 0.002900 0.727000 >>>>>> 35 748.105164 0.008400 0.073700 0.158191 >>>>>> 14.890825 0.003200 0.723800 >>>>>> 36 763.627441 0.006800 0.066900 0.143861 >>>>>> 15.246104 0.003300 0.720500 >>>>>> 37 779.149719 0.007100 0.059800 0.130727 >>>>>> 15.601384 0.004600 0.715900 >>>>>> 38 794.671936 0.007200 0.052600 0.118707 >>>>>> 15.956663 0.000000 0.715900 >>>>>> 39 810.194214 0.005400 0.047200 0.107723 >>>>>> 16.311943 0.000000 0.715900 >>>>>> 40 825.716492 0.005400 0.041800 0.097698 >>>>>> 16.667221 0.000000 0.715900 >>>>>> 41 841.238770 0.004800 0.037000 0.088559 >>>>>> 17.022501 0.000000 0.715900 >>>>>> 42 856.761047 0.004600 0.032400 0.080237 >>>>>> 17.377781 0.000000 0.715900 >>>>>> 43 872.283264 0.003200 0.029200 0.072665 >>>>>> 17.733059 0.000000 0.715900 >>>>>> 44 887.805542 0.003400 0.025800 0.065783 >>>>>> 18.088339 0.000000 0.715900 >>>>>> 45 903.327820 0.002200 0.023600 0.059531 >>>>>> 18.443619 0.000000 0.715900 >>>>>> 46 918.850037 0.002600 0.021000 0.053855 >>>>>> 18.798897 0.000000 0.715900 >>>>>> 47 934.372314 0.002200 0.018800 0.048707 >>>>>> 19.154179 0.000000 0.715900 >>>>>> 48 949.894592 0.001900 0.016900 0.044040 >>>>>> 19.509457 0.000000 0.715900 >>>>>> 49 965.416870 0.002200 0.014700 0.039810 >>>>>> 19.864735 0.000000 0.715900 >>>>>> 50 980.939148 0.000700 0.014000 0.035979 >>>>>> 20.220016 0.000000 0.715900 >>>>>> 51 996.461365 0.002100 0.011900 0.032510 >>>>>> 20.575294 0.000000 0.715900 >>>>>> 52 1011.983643 0.000800 0.011100 0.029371 >>>>>> 20.930573 0.000000 0.715900 >>>>>> 53 1027.505981 0.000800 0.010300 0.026530 >>>>>> 21.285854 0.000000 0.715900 >>>>>> 54 1043.028198 0.001000 0.009300 0.023961 >>>>>> 21.641132 0.000000 0.715900 >>>>>> 55 1058.550415 0.001000 0.008300 0.021638 >>>>>> 21.996410 0.000000 0.715900 >>>>>> 56 1074.072754 0.000900 0.007400 0.019538 >>>>>> 22.351692 0.000000 0.715900 >>>>>> 57 1089.594971 0.000900 0.006500 0.017640 >>>>>> 22.706970 0.000000 0.715900 >>>>>> 58 1105.117310 0.000800 0.005700 0.015925 >>>>>> 23.062248 0.000000 0.715900 >>>>>> 59 1120.639526 0.000100 0.005600 0.014375 >>>>>> 23.417530 0.000000 0.715900 >>>>>> 60 1136.161743 0.000300 0.005300 0.012975 >>>>>> 23.772808 0.000000 0.715900 >>>>>> 61 1151.684082 0.000800 0.004500 0.011711 >>>>>> 24.128086 0.000000 0.715900 >>>>>> 62 1167.206299 0.000400 0.004100 0.010569 >>>>>> 24.483368 0.000000 0.715900 >>>>>> 63 1182.728516 0.000200 0.003900 0.009538 >>>>>> 24.838646 0.000000 0.715900 >>>>>> 64 1198.250854 0.000200 0.003700 0.008607 >>>>>> 25.193924 0.000000 0.715900 >>>>>> 65 1213.773071 0.000300 0.003400 0.007767 >>>>>> 25.549206 0.000000 0.715900 >>>>>> 66 1229.295410 0.000400 0.003000 0.007008 >>>>>> 25.904484 0.000000 0.715900 >>>>>> 67 1244.817627 0.000400 0.002600 0.006323 >>>>>> 26.259762 0.000000 0.715900 >>>>>> 68 1260.339966 0.000300 0.002300 0.005705 >>>>>> 26.615044 0.000000 0.715900 >>>>>> 69 1275.862183 0.000400 0.001900 0.005147 >>>>>> 26.970322 0.000000 0.715900 >>>>>> 70 1291.384399 0.000100 0.001800 0.004644 >>>>>> 27.325600 0.000000 0.715900 >>>>>> 71 1306.906738 0.000000 0.001800 0.004190 >>>>>> 27.680882 0.000000 0.715900 >>>>>> 72 1322.428955 0.000400 0.001400 0.003780 >>>>>> 28.036160 0.000000 0.715900 >>>>>> 73 1337.951172 0.000100 0.001300 0.003410 >>>>>> 28.391438 0.000000 0.715900 >>>>>> 74 1353.473511 0.000100 0.001200 0.003076 >>>>>> 28.746719 0.000000 0.715900 >>>>>> 75 1368.995728 0.000100 0.001100 0.002775 >>>>>> 29.101997 0.000000 0.715900 >>>>>> 76 1384.517944 0.000100 0.001000 0.002503 >>>>>> 29.457275 0.000000 0.715900 >>>>>> 77 1400.040283 0.000300 0.000700 0.002258 >>>>>> 29.812557 0.000000 0.715900 >>>>>> 78 1415.562500 0.000100 0.000600 0.002037 >>>>>> 30.167835 0.000000 0.715900 >>>>>> 79 1431.084839 0.000000 0.000600 0.001838 >>>>>> 30.523113 0.000000 0.715900 >>>>>> 80 1446.607056 0.000100 0.000500 0.001658 >>>>>> 30.878395 0.000000 0.715900 >>>>>> 81 1462.129272 0.000200 0.000300 0.001495 >>>>>> 31.233673 0.000000 0.715900 >>>>>> 82 1477.651611 0.000000 0.000300 0.001349 >>>>>> 31.588951 0.000000 0.715900 >>>>>> 83 1493.173828 0.000200 0.000100 0.001217 >>>>>> 31.944233 0.000000 0.715900 >>>>>> 84 1508.696167 0.000000 0.000100 0.001098 >>>>>> 32.299511 0.000000 0.715900 >>>>>> 85 1524.218384 0.000000 0.000100 0.000990 >>>>>> 32.654789 0.000000 0.715900 >>>>>> 86 1539.740601 0.000000 0.000100 0.000893 >>>>>> 33.010071 0.000000 0.715900 >>>>>> 87 1555.262939 0.000000 0.000100 0.000805 >>>>>> 33.365349 0.000000 0.715900 >>>>>> 88 1570.785156 0.000000 0.000100 0.000727 >>>>>> 33.720627 0.000000 0.715900 >>>>>> 89 1586.307373 0.000000 0.000100 0.000655 >>>>>> 34.075909 0.000000 0.715900 >>>>>> 90 1601.829712 0.000000 0.000100 0.000591 >>>>>> 34.431187 0.000000 0.715900 >>>>>> 91 1617.351929 0.000000 0.000100 0.000533 >>>>>> 34.786469 0.000000 0.715900 >>>>>> 92 1632.874146 0.000000 0.000100 0.000481 >>>>>> 35.141747 0.000000 0.715900 >>>>>> 93 1648.396484 0.000000 0.000100 0.000434 >>>>>> 35.497025 0.000000 0.715900 >>>>>> 94 1663.918701 0.000000 0.000100 0.000391 >>>>>> 35.852306 0.000000 0.715900 >>>>>> 95 1679.441040 0.000000 0.000100 0.000353 >>>>>> 36.207584 0.000000 0.715900 >>>>>> 96 1694.963257 0.000000 0.000100 0.000318 >>>>>> 36.562862 0.000000 0.715900 >>>>>> 97 1710.485474 0.000000 0.000100 0.000287 >>>>>> 36.918144 0.000000 0.715900 >>>>>> 98 1726.007812 0.000000 0.000100 0.000259 >>>>>> 37.273422 0.000000 0.715900 >>>>>> 99 1741.530029 0.000100 -0.000000 0.000234 >>>>>> 37.628700 0.715900 0.000000 >>>>>> >>>>>> ----- Original Message ----- >>>>>> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >>>>>> To: "Jon Wieser" <wie...@uwm.edu> >>>>>> Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> >>>>>> Sent: Monday, December 9, 2013 5:02:41 PM >>>>>> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >>>>>> >>>>>> which file did you look in? It should have a name like >>>>>> cache.th20.abs.y.ocn.dat >>>>>> >>>>>> On 12/09/2013 05:09 PM, Jon Wieser wrote: >>>>>>> I found data for the average thickness all subjects for each cluster, >>>>>>> but I haven't found the individual subject's thickness for each >>>>>>> cluster. can you direct me to that data? >>>>>>> Jon >>>>>>> ----- Original Message ----- >>>>>>> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >>>>>>> To: "Jon Wieser" <wie...@uwm.edu> >>>>>>> Cc: "freesurfer" <freesurfer@nmr.mgh.harvard.edu> >>>>>>> Sent: Monday, December 9, 2013 2:15:39 PM >>>>>>> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >>>>>>> >>>>>>> It is in one of the output files. Look for the .dat file in >>>>>>> mri_glmfit-sim --help >>>>>>> >>>>>>> On 12/09/2013 03:01 PM, Jon Wieser wrote: >>>>>>>> thanks doug, >>>>>>>> >>>>>>>> We've run a 2x2 analysis for thickness in Qdec and want the get the >>>>>>>> average thickness value for each cluster, for each subject. >>>>>>>> How can i get a table of thickness data , for feach subject in the >>>>>>>> analysis >>>>>>>> Jon >>>>>>>> >>>>>>>> ----- Original Message ----- >>>>>>>> From: "Douglas N Greve" <gr...@nmr.mgh.harvard.edu> >>>>>>>> To: freesurfer@nmr.mgh.harvard.edu >>>>>>>> Sent: Monday, December 9, 2013 1:48:15 PM >>>>>>>> Subject: Re: [Freesurfer] qdec analysis with 2 covariates >>>>>>>> >>>>>>>> >>>>>>>> Hi Jon, QDEC does not currently allow more than one covariates of >>>>>>>> interest. You will have to use the command-line stream (ie, >>>>>>>> mris_preproc, mri_surf2surf, mri_glmfit, mri_glmfit-sim) >>>>>>>> >>>>>>>> doug >>>>>>>> >>>>>>>> >>>>>>>> On 12/05/2013 02:57 PM, Jon Wieser wrote: >>>>>>>>> HI freesurfer experts >>>>>>>>> >>>>>>>>> I want to do an analysis in qdec with 2 groups(ADHD, and Marijuana >>>>>>>>> usage) and 2 covariates(age and gender) to study the effect of these >>>>>>>>> factors on cortical thickness. I can only select a covariate in the >>>>>>>>> qdec gui. is there a way to select both covariates in the qdec GUI? >>>>>>>>> Thanks >>>>>>>>> Jon >>>>>>>>> -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@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.
ADHD_MJuser_gender_age.qdec.table.dat
Description: Binary data
_______________________________________________ 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.
