Hi Thank you. I didn't see the email until now and I run the wb_command -surface-create-sphere for the 4k and 2k, then wb_command -surface-resample and I found that the left hemisphere was looking wrong.
Now I used the wb_command -surface-flip-lr for the 4k and 2k spheres, and now both hemispheres are looking as they should. See you in the Vancouver HCP course, Adonay On Wed, May 24, 2017 at 8:06 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > And now yours is much nicer and would probably be the better starting > point for Tim… > > Matt. > > From: Alexander Li Cohen <alexco...@gmail.com> > Date: Wednesday, May 24, 2017 at 9:57 PM > > To: Matt Glasser <glass...@wustl.edu> > Cc: Timothy Coalson <tsc...@mst.edu>, A Nunes <adonay.s.nu...@gmail.com>, > "hcp-users@humanconnectome.org" <HCP-Users@humanconnectome.org> > Subject: Re: [HCP-Users] create 2k space > > Oh interesting. Now I can't remember if I found that version and used it > as a starting point. This was a couple of years ago. Regardless, either one > should be able to make new templates to downscale or upscale as needed... > > -Alex > > On May 24, 2017, at 10:47 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > > Looks pretty similar to this one that has been around for a few years. I > had thought Tim Brown might have gotten a hold of it and changed it. > > Matt. > > From: Alexander Li Cohen <alexco...@gmail.com> > Date: Wednesday, May 24, 2017 at 9:38 PM > To: Matt Glasser <glass...@wustl.edu> > Cc: Timothy Coalson <tsc...@mst.edu>, A Nunes <adonay.s.nu...@gmail.com>, > "hcp-users@humanconnectome.org" <HCP-Users@humanconnectome.org> > Subject: Re: [HCP-Users] create 2k space > > Well, this script I made from scratch with some experimentation, but I > presume there's an in house version that does something similar... > > -Alex > > On May 24, 2017, at 10:35 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > > Indeed, for some reason that script isn’t in the main HCP repo. > > Peace, > > Matt. > > From: Alexander Li Cohen <alexco...@gmail.com> > Date: Wednesday, May 24, 2017 at 9:29 PM > To: Matt Glasser <glass...@wustl.edu> > Cc: Timothy Coalson <tsc...@mst.edu>, A Nunes <adonay.s.nu...@gmail.com>, > "hcp-users@humanconnectome.org" <HCP-Users@humanconnectome.org> > Subject: Re: [HCP-Users] create 2k space > > You could take a look at this code and adapt as needed: > > https://github.com/alexlicohen/script-toolbox/blob/master/ > CreateNewTemplateSpace.sh > > -Alex > > On May 24, 2017, at 2:49 PM, Glasser, Matthew <glass...@wustl.edu> wrote: > > Probably also would need wb_command -surface-create-sphere to actually > make the 2K space. > > Peace, > > Matt. > > From: <hcp-users-boun...@humanconnectome.org> on behalf of Timothy > Coalson <tsc...@mst.edu> > Date: Wednesday, May 24, 2017 at 1:43 PM > To: A Nunes <adonay.s.nu...@gmail.com> > Cc: "hcp-users@humanconnectome.org" <HCP-Users@humanconnectome.org> > Subject: Re: [HCP-Users] create 2k space > > For resampling just the surface (just the coordinates, no functional > data), the command is -surface-resample. There is also -metric-resample > and -label-resample for single-hemisphere format data files (for functional > data, myelin maps, etc), which are likely to be more useful for creating a > template cifti file. > > You can create a template cifti file using -cifti-create-dense-scalar, > once you have the medial wall ROIs and volume resolution/structures worked > out for your desired cifti space. > > 4k vertices is already very low, and is missing a lot of cortical detail. > If the reason for doing this is a data reduction, you might try using > parcellation instead (-cifti-parcellate), where it ideally groups vertices > by function (the HCP MMP 1.0 has 180 areas per hemisphere), and doing less > mixing of different functions than a simple downsampling. > > Tim > > > On Wed, May 24, 2017 at 12:44 PM, A Nunes <adonay.s.nu...@gmail.com> > wrote: > >> HI >> >> HCP MEG dataset provides surfaces with 4k vertices, I would like to >> resample it to 2k. I have tried wd_command -cifti-resample, but it requires >> a cifti-template, but i don't have any cifti of 2k. >> >> >> What commands should I use to get a 2k surface for every subject? >> >> Thanks >> >> _______________________________________________ >> 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 > > <CreateNewTemplateSpace.sh> > > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
