where can I download wb_shortcuts command? Thanks! Best, Nailin
2016-11-22 15:28 GMT-05:00 Harms, Michael <[email protected]>: > > Two things: > 1) That is not the proper syntax for using -cifti-merge. You need to > repeat the -cifti argument separately for *each* cifti file. I suggest > that you use wb_shortcuts -cifti-concatenate instead to make it simpler. > 2) A .func.gii is not a CIFTI file. Use the .dscalar.nii version of the > myelin maps as input. > > 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: [email protected] > > From: nailin yao <[email protected]> > Date: Tuesday, November 22, 2016 at 2:14 PM > To: Michael Harms <[email protected]> > Cc: "[email protected]" <[email protected]> > Subject: Re: [HCP-Users] group comparison > > Hi Michael, > > I tried the command: ./wb_command -cifti-merge > L.SmoothedMyelinMap.32k_fs_LR.out.func.gii -cifti > *.L.SmoothedMyelinMap.32k_fs_LR.func.gii, > > but comes the error: > > ERROR: error reading NIfTI file /gpfs/scratch60/fas/glahn/ > ny87/Connectivity_Study/myelinmap_analysis/S0009QPW.L. > SmoothedMyelinMap.32k_fs_LR.func.gii: /gpfs/scratch60/fas/glahn/ > ny87/Connectivity_Study/myelinmap_analysis/S0009QPW.L. > SmoothedMyelinMap.32k_fs_LR.func.gii is not a valid NIfTI file > > How can I solve this? Thank you ! > > Best, > Nailin > > 2016-11-22 14:14 GMT-05:00 nailin yao <[email protected]>: > >> Thank you MH! >> >> Best, >> Nailin >> >> 2016-11-22 13:30 GMT-05:00 Harms, Michael <[email protected]>: >> >>> >>> By “compress” do you mean merge into a single file? If so, you can use >>> wb_command >>> -cifti-merge, or wb_shortcuts -cifti-concatenate. (The latter is a >>> wrapper that simplifies the merge call). And you can use FSL’s PALM to do >>> a permutation test. >>> >>> If 164k is too dense a sampling, there are 32k versions of the myelin >>> maps that you could use instead. >>> >>> 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: [email protected] >>> >>> From: <[email protected]> on behalf of nailin yao < >>> [email protected]> >>> Date: Tuesday, November 22, 2016 at 12:07 PM >>> To: "[email protected]" <[email protected]> >>> Subject: [HCP-Users] group comparison >>> >>> Hi, >>> >>> I want to compare group difference of >>> *L.SmoothedMyelinMap.164k_fs_LR.func.gii >>> of each subjects. How can I compress the myelinmap of all the subjects and >>> do the group level permutation test on them? Thank you very much! >>> >>> Best, >>> Nailin >>> >>> -- >>> Nailin Yao, PhD >>> >>> Postdoctoral Associate >>> Department of Psychiatry, Yale University >>> >>> _______________________________________________ >>> HCP-Users mailing list >>> [email protected] >>> 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. >>> >> >> >> >> -- >> Nailin Yao, PhD >> >> Postdoctoral Associate >> Department of Psychiatry, Yale University >> >> > > > -- > Nailin Yao, PhD > > Postdoctoral Associate > Department of Psychiatry, Yale University > > > ------------------------------ > > 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. > -- Nailin Yao, PhD Postdoctoral Associate Department of Psychiatry, Yale University _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
