[HCP-Users] Task fMRI Stimuli
Are there plans to make the task fMRI stimuli available for download? We are considering running matched task fMRI paradigms with some of our subjects. Regards, Sean ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
Re: [HCP-Users] projecting from volume to R440 template (subcortical and cerebellum)
Thank you for replying Timothy. However I am asking about mapping to the
group template, and my volumetric map is not from a HCP subject. How do you
think I can map the subcortical data in this case?
Best,
Cherry
On Thu, Feb 5, 2015 at 3:35 PM, Timothy Coalson tsc...@mst.edu wrote:
I believe the needed label file to match our grayordinate space is here,
and should be just a copy of the same file in each subject:
${StudyFolder}/${SubjectID}/MNINonLinear/ROIs/Atlas_ROIs.2.nii.gz
We don't use cerebellum surfaces for much yet (they are not in the 91k
grayordinate space, instead the cerebellum is included as voxels), as it is
currently not feasible to segment subject cerebellums into surfaces.
Tim
On Mon, Feb 2, 2015 at 8:22 AM, Yizhou Ma maxxx...@umn.edu wrote:
Dear HCP experts,
I have a map in volumetric space and I am trying to project it onto the
R440 template. I am trying to use wb_command -volume-to-surface-mapping
-cifti-create-dense-scalar. It works fine for the two hemispheres. Yet for
subcortical volume, I can not find a label volume file for the R440
template. Similarly, for cerebellum, I can not find a cerebellum surface
file for R440. Would you please help?
Thanks in advance,
Cherry
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[HCP-Users] Fwd: Regarding: No T2w_reg_fast_pve_2 for reading
WARNING: This e-mail has been altered by MIMEDefang. Following this paragraph are indications of the actual changes made. For more information about your site's MIMEDefang policy, contact MIMEDefang Administrator's Full Name postmaster@localhost. For more information about MIMEDefang, see: http://www.roaringpenguin.com/mimedefang/enduser.php3 An attachment named PreFreeSurferPipelineBatch.sh was removed from this document as it constituted a security hazard. If you require this document, please contact the sender and arrange an alternate means of receiving it. An attachment named SetUpHCPPipeline.sh was removed from this document as it constituted a security hazard. If you require this document, please contact the sender and arrange an alternate means of receiving it. ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users Dear HCP team members, Thank you so much for replying back to me! Thank you Dr Glasser for your valuable inputs, it sure made the pre surfer analysis of lifespan data move ahead. I am using HCP pipelines version 3.4.0. It has stopped again now and says the following error after doing Topup Field Map Generation and Gradient Unwarping. Cannot open volume /home/xxx/xxx/xxx/HCP_data//LS2001/T2w/T2wToT1wDistortionCorrectAndReg/T2w2T1w/T2w_reg_fast_pve_2 for reading! On checking my T2w directory I did not find these files: sinhas@tern9 [/home/xxx/sinhas] % cd /home/xxx/xxx/xxx/HCP_data/LS2001/T2w/T2wToT1wDistortionCorrectAndReg/T2w2T1w/ sinhas@tern9 [/home/xxx/xxx/xxx/HCP_data/LS2001/T2w/T2wToT1wDistortionCorrectAndReg/T2w2T1w] % ls T2w_reg_init.mat I am attaching the PreFreeSurferBatchline.sh and HCPPipeline.sh with the error log for your perusal. If only you would please let me know whether I need to do any other corrections to the scripts to make it run again. Also, will you please let me know if there are separate scripts for the analysis of lifespan data without the gradient distortion correction. Thank you so much for your time… With kind regards, Sampada -- Sampada Sinha Post-Doctoral Associate University of Minnesota (East Bank) Molecular and neuroimaging laboratory Department of Psychiatry Minneapolis-55415 -- Sampada Sinha Post-Doctoral Associate University of Minnesota (East Bank) Molecular and neuroimaging laboratory Department of Psychiatry Minneapolis-55415 Phone number: 718-913-0636 email: sin...@umn.edu email%3asin...@umn.edu drsampadasi...@gmail.com PreFreeSurferPipeline.sh.e23353 Description: Binary data
Re: [HCP-Users] Regarding: No T2w_reg_fast_pve_2 for reading
Your e-mail got some attachments stripped out, but it looked like you might have exceeded a queue limit on a cluster or something like that, as the first error was a processing being killed. Peace, Matt. On 2/12/15, 12:52 AM, Dr Sampada Sinha drsampadasi...@gmail.com wrote: WARNING: This e-mail has been altered by MIMEDefang. Following this paragraph are indications of the actual changes made. For more information about your site's MIMEDefang policy, contact MIMEDefang Administrator's Full Name postmaster@localhost. For more information about MIMEDefang, see: http://www.roaringpenguin.com/mimedefang/enduser.php3 An attachment named PreFreeSurferPipelineBatch.sh was removed from this document as it constituted a security hazard. If you require this document, please contact the sender and arrange an alternate means of receiving it. An attachment named SetUpHCPPipeline.sh was removed from this document as it constituted a security hazard. If you require this document, please contact the sender and arrange an alternate means of receiving it. ___ 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
