Re: [HCP-Users] FreeSurfer brain volume question
Thanks, Jennifer and Michael. Best, Chao On Wed, Nov 22, 2017 at 3:38 PM, Harms, Michael <mha...@wustl.edu> wrote: > > > Hi, > > In FS, “Intracranial volume”, renamed to “EstimatedTotalIntraCranialVol” > (aka “eTIV”) in more recent FS versions, is solely based on the determinant > of a talairach transform that is internal to FS. That particular transform > does not necessarily need to be accurate for FS to generate accurate > surfaces/segmentations, so we did not QC it. For that reason, I do not > recommend using it. > > > > Cheers, > > -MH > > > > -- > > Michael Harms, Ph.D. > > --- > > Conte Center for the Neuroscience of Mental Disorders > > Washington University School of Medicine > > Department of Psychiatry, Box 8134 > > 660 South Euclid Ave > <https://maps.google.com/?q=660+South+Euclid+Ave=gmail=g>. > Tel: 314-747-6173 <(314)%20747-6173> > > St. Louis, MO 63110 Email: > mha...@wustl.edu > > > > *From: *<hcp-users-boun...@humanconnectome.org> on behalf of Chao Zhang < > cha...@gmail.com> > *Date: *Wednesday, November 22, 2017 at 2:25 PM > *To: *"hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> > *Subject: *[HCP-Users] FreeSurfer brain volume question > > > > Hi > > > > We were checking the FS brain volumes and found that out of the 1113 > subjects for 14 subjects the FS_BrainSeg_Vol is larger than the > FS_IntraCranial_Vol (so that the column FS_BrainSegVol_eTIV_Ratio is larger > than 1). We wonder if this is due to some error in calculating either of > the two columns (FS_BrainSeg_Vol, FS_IntraCranial_Vol)? Thanks! > > > > Best, > > Chao > > > > > > > > > > > > > > ___ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > -- > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] FreeSurfer brain volume question
Hi, In FS, “Intracranial volume”, renamed to “EstimatedTotalIntraCranialVol” (aka “eTIV”) in more recent FS versions, is solely based on the determinant of a talairach transform that is internal to FS. That particular transform does not necessarily need to be accurate for FS to generate accurate surfaces/segmentations, so we did not QC it. For that reason, I do not recommend using it. Cheers, -MH -- Michael Harms, Ph.D. --- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave.Tel: 314-747-6173 St. Louis, MO 63110 Email: mha...@wustl.edu From: <hcp-users-boun...@humanconnectome.org> on behalf of Chao Zhang <cha...@gmail.com> Date: Wednesday, November 22, 2017 at 2:25 PM To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: [HCP-Users] FreeSurfer brain volume question Hi We were checking the FS brain volumes and found that out of the 1113 subjects for 14 subjects the FS_BrainSeg_Vol is larger than the FS_IntraCranial_Vol (so that the column FS_BrainSegVol_eTIV_Ratio is larger than 1). We wonder if this is due to some error in calculating either of the two columns (FS_BrainSeg_Vol, FS_IntraCranial_Vol)? Thanks! Best, Chao ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] FreeSurfer brain volume question
Hi Chao, See this earlier list thread: https://www.mail-archive.com/hcp-users@humanconnectome.org/msg05148.html As is stated in that thread, we don't recommend using the the IntraCranial volume estimate. Best, Jenn Jennifer Elam, Ph.D. Scientific Outreach, Human Connectome Project Washington University School of Medicine Department of Neuroscience, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387 e...@wustl.edu<mailto:e...@wustl.edu> www.humanconnectome.org<http://www.humanconnectome.org/> From: hcp-users-boun...@humanconnectome.org <hcp-users-boun...@humanconnectome.org> on behalf of Chao Zhang <cha...@gmail.com> Sent: Wednesday, November 22, 2017 2:25:32 PM To: hcp-users@humanconnectome.org Subject: [HCP-Users] FreeSurfer brain volume question Hi We were checking the FS brain volumes and found that out of the 1113 subjects for 14 subjects the FS_BrainSeg_Vol is larger than the FS_IntraCranial_Vol (so that the column FS_BrainSegVol_eTIV_Ratio is larger than 1). We wonder if this is due to some error in calculating either of the two columns (FS_BrainSeg_Vol, FS_IntraCranial_Vol)? Thanks! Best, Chao ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
[HCP-Users] FreeSurfer brain volume question
Hi We were checking the FS brain volumes and found that out of the 1113 subjects for 14 subjects the FS_BrainSeg_Vol is larger than the FS_IntraCranial_Vol (so that the column FS_BrainSegVol_eTIV_Ratio is larger than 1). We wonder if this is due to some error in calculating either of the two columns (FS_BrainSeg_Vol, FS_IntraCranial_Vol)? Thanks! Best, Chao ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
