Re: [Freesurfer] QdecGlmDesign::Create: zero factors!
Hi Doug, Thanks, I have done as you suggested but I am still getting an error. I have attached the terminal output but also paste the error below: Data table loading completed successfully. SUBJECTS_DIR is '/Users/clareloane/Desktop/MAP/Image_Analysis/Volumetrics/Freesurfer/qdec' ERROR: QdecGlmDesign::Create: could not create directory /Users/clareloane/Desktop/MAP/Image_Analysis/Volumetrics/Freesurfer/qdec/qdec/VGKC BW Clare From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: 19 May 2016 16:09 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] QdecGlmDesign::Create: zero factors! from the snap shot it does not look like you have selected any factors. Try clicking on and highlighting Group, for example On 05/19/2016 04:52 AM, Clare Loane wrote: > Hi Doug, > > Sure. I have attached a screenshot of the design tab as well as the terminal > output, mydata.table.dat/Gender.levels/Group.levels files. > > Many thanks in advance. > > Clare > > > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: 18 May 2016 18:03 > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] QdecGlmDesign::Create: zero factors! > > Also, more of the terminal output, not just the error > > On 05/18/2016 12:45 PM, Clare Loane wrote: >> Hi - I am attempting to run Qdec on a group of patients vs controls. I >> have created the mydata.table.dat file with fsid, Group, Age, Gender >> (and separate files for Group.levels and Gender.levels. >> >> >> Everything is loading fine but when I press 'analyze' I get an error: >> >> >> *Completed creation of aseg and aparc stats data tables.* >> >> *ERROR: QdecGlmDesign::Create: zero factors!* >> >> * >> * >> >> Can someone help me find out what I am doing wrong? >> >> >> Many thanks in advance. >> >> >> ps I am using the following version: >> freesurfer-Darwin-lion-stable-pub-v5.3.0 >> >> >> BW >> >> >> Clare >> >> >> >> ___ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > -- > 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/ > > ___ > 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 -- 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/ ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer Terminal Saved Output Description: Terminal Saved Output ___ 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.
Re: [Freesurfer] QdecGlmDesign::Create: zero factors!
Hi Doug, Thanks, I have done as you suggested but I am still getting an error. I have attache the terminal output but also paste the error below: From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: 19 May 2016 16:09 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] QdecGlmDesign::Create: zero factors! from the snap shot it does not look like you have selected any factors. Try clicking on and highlighting Group, for example On 05/19/2016 04:52 AM, Clare Loane wrote: > Hi Doug, > > Sure. I have attached a screenshot of the design tab as well as the terminal > output, mydata.table.dat/Gender.levels/Group.levels files. > > Many thanks in advance. > > Clare > > > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: 18 May 2016 18:03 > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] QdecGlmDesign::Create: zero factors! > > Also, more of the terminal output, not just the error > > On 05/18/2016 12:45 PM, Clare Loane wrote: >> Hi - I am attempting to run Qdec on a group of patients vs controls. I >> have created the mydata.table.dat file with fsid, Group, Age, Gender >> (and separate files for Group.levels and Gender.levels. >> >> >> Everything is loading fine but when I press 'analyze' I get an error: >> >> >> *Completed creation of aseg and aparc stats data tables.* >> >> *ERROR: QdecGlmDesign::Create: zero factors!* >> >> * >> * >> >> Can someone help me find out what I am doing wrong? >> >> >> Many thanks in advance. >> >> >> ps I am using the following version: >> freesurfer-Darwin-lion-stable-pub-v5.3.0 >> >> >> BW >> >> >> Clare >> >> >> >> ___ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > -- > 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/ > > ___ > 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 -- 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/ ___ 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
Re: [Freesurfer] QdecGlmDesign::Create: zero factors!
Hi Doug, Sure. I have attached a screenshot of the design tab as well as the terminal output, mydata.table.dat/Gender.levels/Group.levels files. Many thanks in advance. Clare From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: 18 May 2016 18:03 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] QdecGlmDesign::Create: zero factors! Also, more of the terminal output, not just the error On 05/18/2016 12:45 PM, Clare Loane wrote: > > Hi - I am attempting to run Qdec on a group of patients vs controls. I > have created the mydata.table.dat file with fsid, Group, Age, Gender > (and separate files for Group.levels and Gender.levels. > > > Everything is loading fine but when I press 'analyze' I get an error: > > > *Completed creation of aseg and aparc stats data tables.* > > *ERROR: QdecGlmDesign::Create: zero factors!* > > * > * > > Can someone help me find out what I am doing wrong? > > > Many thanks in advance. > > > ps I am using the following version: > freesurfer-Darwin-lion-stable-pub-v5.3.0 > > > BW > > > Clare > > > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- 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/ ___ 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. Terminal Saved Output Description: Terminal Saved Output mydata.table.dat Description: mydata.table.dat Group.levels Description: Group.levels Gender.levels Description: Gender.levels ___ 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] QdecGlmDesign::Create: zero factors!
Hi - I am attempting to run Qdec on a group of patients vs controls. I have created the mydata.table.dat file with fsid, Group, Age, Gender (and separate files for Group.levels and Gender.levels. Everything is loading fine but when I press 'analyze' I get an error: Completed creation of aseg and aparc stats data tables. ERROR: QdecGlmDesign::Create: zero factors! Can someone help me find out what I am doing wrong? Many thanks in advance. ps I am using the following version: freesurfer-Darwin-lion-stable-pub-v5.3.0 BW Clare ___ 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.
Re: [Freesurfer] aparc stats volume outputting area instead
Hi Doug, Many thanks indeed: everything working fine now. BW clare From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas Greve [gr...@nmr.mgh.harvard.edu] Sent: 16 March 2016 14:53 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] aparc stats volume outputting area instead There is not actually a "-meas" option. It should be either " -m volume" or " --measure=volume". Strange, it should have exited with an error but some reason it did not and used area as the default. On 3/16/16 10:27 AM, Clare Loane wrote: Hi Doug, I am using version 5.3 and the terminal output does not state an error (below) and the file is created (attached) but as you will see, it is the area measurements which are output. dcnmac75:Freesurfer clare$ aparcstats2table --subjects CON_001 CON_002 CON_003 CON_004 CON_006 CON_007 CON_008 CON_009 CON_010 CON_011 CON_013 CON_014 CON_015 CON_016 CON_017 CON_018 CON_019 CON_021 CON_022 CON_025 CON_026 CON_027 CON_028 CON_029 CON_030 CON_032 CON_033 CON_034 CON_035 CON_036 CON_038 CON_039 CON_040 CON_041 CON_042 CON_045 CON_049 CON_054 CON_055 CON_057 CON_063 OXCON_005 OXCON_009 OXCON_012 OXCON_025 OXCON_026 OXCON_028 OXCON_029 OXCON_031 OXCON_040 OXCON_042 OXCON_052 OXCON_053 OXCON_054 OXCON_055 OXCON_058 OXCON_059 OXCON_060 OXCON_061 OXCON_062 OXCON_064 OXCON_065 OXCON_066 OXCON_067 --hemi rh –meas volume --tablefile aparc_stats_volume_rh.txt --skip SUBJECTS_DIR : /Users/clare/Desktop/MAP/Volumetrics/FreeSurfer/CONTROLS/ Parsing the .stats files Building the table.. Writing the table to aparc_stats_volume_rh.txt Since posting the original message, it does seem that the correct measurement can be acquired when I aparcstat2table on subjects individually. Although often it will state error that the rh.aparc.stats is not found or is too small to be a valid stats file. This is not the case as they are all there and full of measurements. Many thanks, Clare From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> [freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu<mailto:gr...@nmr.mgh.harvard.edu>] Sent: 15 March 2016 16:55 To: freesurfer@nmr.mgh.harvard.edu<mailto:freesurfer@nmr.mgh.harvard.edu> Subject: Re: [Freesurfer] aparc stats volume outputting area instead Can you send the terminal output? Also, what version are you using? On 03/14/2016 09:56 AM, Clare Loane wrote: Hi, I am trying to pull out the volumes from the aparc stats file but when I input the following (below) it produces a file identical to the area instead: aparcstats2table --subjects 001 002 003 --hemi rh --meas volume --tablefile aparc_stats_volume_rh.txt It works fine for thickness and area as well aseg_stats. I would appreciate any help with this. Thank you! Clare ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu<mailto: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<http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ ___ 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 ___ 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/
Re: [Freesurfer] aparc stats volume outputting area instead
Hi Doug, I am using version 5.3 and the terminal output does not state an error (below) and the file is created (attached) but as you will see, it is the area measurements which are output. dcnmac75:Freesurfer clare$ aparcstats2table --subjects CON_001 CON_002 CON_003 CON_004 CON_006 CON_007 CON_008 CON_009 CON_010 CON_011 CON_013 CON_014 CON_015 CON_016 CON_017 CON_018 CON_019 CON_021 CON_022 CON_025 CON_026 CON_027 CON_028 CON_029 CON_030 CON_032 CON_033 CON_034 CON_035 CON_036 CON_038 CON_039 CON_040 CON_041 CON_042 CON_045 CON_049 CON_054 CON_055 CON_057 CON_063 OXCON_005 OXCON_009 OXCON_012 OXCON_025 OXCON_026 OXCON_028 OXCON_029 OXCON_031 OXCON_040 OXCON_042 OXCON_052 OXCON_053 OXCON_054 OXCON_055 OXCON_058 OXCON_059 OXCON_060 OXCON_061 OXCON_062 OXCON_064 OXCON_065 OXCON_066 OXCON_067 --hemi rh –meas volume --tablefile aparc_stats_volume_rh.txt --skip SUBJECTS_DIR : /Users/clare/Desktop/MAP/Volumetrics/FreeSurfer/CONTROLS/ Parsing the .stats files Building the table.. Writing the table to aparc_stats_volume_rh.txt Since posting the original message, it does seem that the correct measurement can be acquired when I aparcstat2table on subjects individually. Although often it will state error that the rh.aparc.stats is not found or is too small to be a valid stats file. This is not the case as they are all there and full of measurements. Many thanks, Clare From: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve [gr...@nmr.mgh.harvard.edu] Sent: 15 March 2016 16:55 To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] aparc stats volume outputting area instead Can you send the terminal output? Also, what version are you using? On 03/14/2016 09:56 AM, Clare Loane wrote: > Hi, > > I am trying to pull out the volumes from the aparc stats file but when > I input the following (below) it produces a file identical to the area > instead: > > aparcstats2table --subjects 001 002 003 --hemi rh --meas volume > --tablefile aparc_stats_volume_rh.txt > > It works fine for thickness and area as well aseg_stats. > > I would appreciate any help with this. > > Thank you! > > Clare > > > ___ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- 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/ ___ 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. rh.aparc.area rh_bankssts_arearh_caudalanteriorcingulate_area rh_caudalmiddlefrontal_area rh_cuneus_area rh_entorhinal_area rh_fusiform_arearh_inferiorparietal_area rh_inferiortemporal_arearh_isthmuscingulate_area rh_lateraloccipital_arearh_lateralorbitofrontal_arearh_lingual_area rh_medialorbitofrontal_area rh_middletemporal_area rh_parahippocampal_area rh_paracentral_area rh_parsopercularis_area rh_parsorbitalis_area rh_parstriangularis_arearh_pericalcarine_area rh_postcentral_area rh_posteriorcingulate_area rh_precentral_area rh_precuneus_area rh_rostralanteriorcingulate_arearh_rostralmiddlefrontal_area rh_superiorfrontal_area rh_superiorparietal_area rh_superiortemporal_arearh_supramarginal_area rh_frontalpole_area rh_temporalpole_arearh_transversetemporal_area rh_insula_area rh_WhiteSurfArea_area CON_001 783.0 631.0 1962.0 1329.0 333.0 2856.0 5047.0 2921.0 990.0 5077.0 2516.0 2968.0 1671.0 3162.0 779.0 1449.0 1634.0 644.0 1495.0 1726.0 3606.0 1014.0 4683.0 3745.0 570.0 4663.0 6534.0 5550.0 3250.0 3836.0 223.0 492.0 296.0 2296.0 80734.1 CON_002 1015.0 612.0 2199.0 1572.0 405.0 3356.0 6356.0 2983.0 816.0 4694.0 2154.0 2791.0 1525.0 3528.0 719.0 1300.0 1713.0 793.0 1371.0 1313.0 4272.0 1149.0 5107.0 4136.0 565.0 5130.0 6199.0 5632.0 3581.0 3819.0 294.0 412.0 295.0 2559.0 84361.6 CON_003 924.0 848.0 2009.
[Freesurfer] aparc stats volume outputting area instead
Hi, I am trying to pull out the volumes from the aparc stats file but when I input the following (below) it produces a file identical to the area instead: aparcstats2table --subjects 001 002 003 --hemi rh --meas volume --tablefile aparc_stats_volume_rh.txt It works fine for thickness and area as well aseg_stats. I would appreciate any help with this. Thank you! Clare ___ 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] Multiple comparisons to confirm atrophy
Dear All, I have completed recon-all on my dataset of controls and patients. My patients have hippocampal/MTL atrophy and I would like to conduct multiple comparisons on the data to ensure that the atrophy is indeed focal in each patient and if not, identify where else atrophy is occurring in these patients. My hypothesis is that I do not expect atrophy elsewhere due to the disease type of these patients, but as this has never been confirmed outside of visual inspection before I wish to check this more robustly. I am not at all familiar with this kind of analysis and would like to ask some advice on how I should approach this? My initial instinct is to go with permutation testing. I would like to consider the whole brain (subcortical and surface). Are there other issues I should be taking into account? Any advice and specific information regarding the subsequent analysis in freesurfer would be greatly appreciated. Many thanks in advance. Clare ___ 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.
