Thank you, Matt. But can you please provide more details because I do not fully understand. There are -cifti-dilate, -metric-dilate and -label-dilate. Which one do I use? If this is the former, it seems that I still need to create the label manually. If you mean two former, it is not clear to me how I "start with values at the vertices".
On Wed, Apr 26, 2017 at 8:50 PM, Glasser, Matthew <[email protected]> wrote: > You should be able to start with values at the vertices and then use a > dilate command to make the circles. > > Peace, > > Matt. > > From: <[email protected]> on behalf of Vadim Axel < > [email protected]> > Date: Wednesday, April 26, 2017 at 12:46 PM > To: "Elam, Jennifer" <[email protected]> > Cc: "[email protected]" <[email protected]>, > "Dierker, Donna" <[email protected]> > > Subject: Re: [HCP-Users] automatic drawing of circles on a surface > > Nice feature, thanks Jennifer. Though, not sure that it will help me > because I have hundreds of patches that should be created automatically. As > far as I understand, there is no functionality to create foci file > automatically. > > BTW, unrelated, I wonder whether there is a way in the workbench to select > some vertex not by a mouse click, but by providing the vertexID (or MNI > coordinate). Something like in matlab Ctrl+G, where you jump directly to > some line. > > Thank you. > > > On Wed, Apr 26, 2017 at 6:31 PM, Elam, Jennifer <[email protected]> wrote: > >> Hi Vadim, >> >> You could also try creating foci at the coordinates of the electrodes in >> the wb_view GUI, which you could show as spheres like in the image you are >> trying to emulate. >> >> To create foci, click on "Foci" in the Mode section of the Toolbar and a >> set of Foci buttons will appear at the bottom of the Toolbar. Click on >> "New" and use the dialog to create a *.foci file to save your foci, and add >> your first focus at your electrode coordinates, and make sure the "Project >> to Surface" checkbox is checked at the bottom of the dialog. Continue the >> process for all the electrodes you want to show. >> >> When you are done adding foci to the *.foci file you created, don't >> forget to go to File>Save/Manage Files to save the *.foci file to disk. >> Even though you set a file name in workbench, that doesn't save the file >> without this step. >> >> To adjust the way the foci are shown (size, shape, color, etc.), open >> the Features Toolbox (View>Features Toolbox, or toolbox-looking icon at the >> top far right). >> >> You also might want to create a *.scene file to save your work as you do >> this (clapboard icon at top right) so you can pick up where you left off if >> you need to, but again you need to go to File>Save/Manage Files to save >> the *.scene file to disk. >> >> >> There is Help info on all these features in the Workbench Help (? icon at >> top). >> >> >> Hope that helps! >> >> 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 >> [email protected] >> www.humanconnectome.org >> >> ------------------------------ >> *From:*[email protected] < >> [email protected]> on behalf of Vadim Axel < >> [email protected]> >> *Sent:* Wednesday, April 26, 2017 9:41:23 AM >> *To:* Dierker, Donna >> *Cc:* [email protected] >> *Subject:* Re: [HCP-Users] automatic drawing of circles on a surface >> >> Thank you Donna. >> >> You are right that using midthickness my patches become more circular >> (though still not fully). However, the main reason I want to use the >> inflated or even very inflated view is because using for example >> midthickness some of the patches are hidden within the sulci (see attached >> image). The question is whether there is a way to make some drawing on the >> surface irrespective of vertices, probably by exporting the surface... >> >> On Wed, Apr 26, 2017 at 4:26 PM, Dierker, Donna <[email protected]> wrote: >> >>> Hi Vadim, >>> >>> Try looking at your patches on an anatomical surface (e.g., white, >>> midthickness, pial). >>> They probably will look more like what you expect. >>> The inflated surface necessarily distorts the shape of overlays. >>> See attached capture which shows distance borders from AVM on >>> midthickness in the lower left corner, on the inflated at right. >>> >>> Donna >>> >>> >>> >>> On Apr 26, 2017, at 5:17 AM, Vadim Axel <[email protected]> wrote: >>> >>> Dear experts, >>> >>> I use connectome workbench to visualize position of intracranial >>> electrodes.My intention was to make a small circle around each location. >>> For that, I took MNI coordinate of an ellectrode converted it to vertexID >>> (wb_command -surface-closest-vertex) and then found vertices within 2mm >>> (wb_command -surface-geodesic-distance). Instead of circles, I got >>> non-circular patches (see attachment, left). Can someone suggest how can I >>> create circles like in the right picture? >>> >>> Thanks for the help, >>> Vadim >>> _______________________________________________ >>> HCP-Users mailing list >>> [email protected] >>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >>> >>> <sample.png> >>> >>> >>> >>> ------------------------------ >>> >>> 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. 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