Re: [HCP-Users] Transformation matrices of HCP 500 Subject Release
Joo-won, We've recently created a "CREST" experiment for each released subject that should give you access to intermediate/non-relased files in the database via REST and for which you know the paths. Here's an example for subject 100307 for one of the files you're interested in: curl -s -k --cookie JSESSIONID=$DBSESSION https://db.humanconnectome.org/data/projects/HCP_500/subjects/100307/experiments/100307_CREST/resources/100307_CREST/files/T1w/AverageT1wImages/ImToHalf0001.nii.gz The JSESSIONID variable can be set via the following: DBSESSION=`curl -s -u username:password -X GET https://db.humanconnectome.org/data/JSESSIONID`;echo $DBSESSION Regards, Mike From: hcp-users-boun...@humanconnectome.org on behalf of Harms, Michael Sent: Wednesday, December 2, 2015 2:25 PM To: Kim, Joo-won; hcp-users@humanconnectome.org Subject: Re: [HCP-Users] Transformation matrices of HCP 500 Subject Release Hi, You should be able to obtain the files via REST calls into the database. See previous post in the list archives for an example of how to do so. 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 63110Email: mha...@wustl.edu On 12/2/15 1:58 PM, "Kim, Joo-won" wrote: Dear HCP, Thank you for the HCP data. I have a request. Could you release the transformation matrices from unprocessed images to ACPC aligned images of the HCP 500 Subjects Release? I would like to analyze both averaged and individual scans, but when I ran the PreFreeSurfer, the ACPC-aligned images were shifted a little bit compared to those in the released data. Specifically, could you provide the following files corresponding to the subjects in the attachment? T1w/AverageT1wImages/ToHalfTrans000?.mat or T1w/AverageT1wImages/ImToHalf000?.nii.gz T1w/xfms/acpc.mat T2w/AverageT2wImages/ToHalfTrans000?.mat or T2w/AverageT2wImages/ImToHalf000?.nii.gz T2w/xfms/acpc.mat T2w/T2wToT1wReg/T2w2T1w.mat Best, Joo-won -- Joo-won Kim Postdoctoral Fellow Translational and Molecular Imaging Institute Department of Radiology Icahn School of Medicine at Mount Sinai ___ 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 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] Transformation matrices of HCP 500 Subject Release
Hi, You should be able to obtain the files via REST calls into the database. See previous post in the list archives for an example of how to do so. 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 63110Email: mha...@wustl.edu On 12/2/15 1:58 PM, "Kim, Joo-won" wrote: Dear HCP, Thank you for the HCP data. I have a request. Could you release the transformation matrices from unprocessed images to ACPC aligned images of the HCP 500 Subjects Release? I would like to analyze both averaged and individual scans, but when I ran the PreFreeSurfer, the ACPC-aligned images were shifted a little bit compared to those in the released data. Specifically, could you provide the following files corresponding to the subjects in the attachment? T1w/AverageT1wImages/ToHalfTrans000?.mat or T1w/AverageT1wImages/ImToHalf000?.nii.gz T1w/xfms/acpc.mat T2w/AverageT2wImages/ToHalfTrans000?.mat or T2w/AverageT2wImages/ImToHalf000?.nii.gz T2w/xfms/acpc.mat T2w/T2wToT1wReg/T2w2T1w.mat Best, Joo-won -- Joo-won Kim Postdoctoral Fellow Translational and Molecular Imaging Institute Department of Radiology Icahn School of Medicine at Mount Sinai ___ 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
[HCP-Users] Transformation matrices of HCP 500 Subject Release
Dear HCP, Thank you for the HCP data. I have a request. Could you release the transformation matrices from unprocessed images to ACPC aligned images of the HCP 500 Subjects Release? I would like to analyze both averaged and individual scans, but when I ran the PreFreeSurfer, the ACPC-aligned images were shifted a little bit compared to those in the released data. Specifically, could you provide the following files corresponding to the subjects in the attachment? T1w/AverageT1wImages/ToHalfTrans000?.mat or T1w/AverageT1wImages/ImToHalf000?.nii.gz T1w/xfms/acpc.mat T2w/AverageT2wImages/ToHalfTrans000?.mat or T2w/AverageT2wImages/ImToHalf000?.nii.gz T2w/xfms/acpc.mat T2w/T2wToT1wReg/T2w2T1w.mat Best, Joo-won -- Joo-won Kim Postdoctoral Fellow Translational and Molecular Imaging Institute Department of Radiology Icahn School of Medicine at Mount Sinai ___ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users 100307 100408 101107 101309 101915 103111 103414 103818 105014 105115 106016 108828 110411 111312 111716 113619 113922 114419 115320 116524 117122 118528 118730 118932 120111 122620 131217 153025 154734 188347 211720 212318 214423 221319 239944 245333 280739 298051 366446 397760 414229 499566 654754 672756 751348 756055 792564 856766 857263 899885
