ajay:neuroelf_usage_notes
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ajay:neuroelf_usage_notes [2013/10/21 12:50] – [Visualization Help] ajay | ajay:neuroelf_usage_notes [2014/03/24 15:18] – [Using the voxel rendering] ajay | ||
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- Then...< | - Then...< | ||
- | voi_betas = glm.VOIBetas(voi);</ | + | voi_betas = glm.VOIBetas(voi); |
- | + | %or to get all the beta maps not limited to a voi | |
+ | betas = glm.GLMData.Subject(S).BetaMaps(:,:,:,: | ||
+ | </ | ||
==== Using command lines to extract design information from glm NeuroElf ==== | ==== Using command lines to extract design information from glm NeuroElf ==== | ||
- glm.SubjectPredictors provides names of predictors | - glm.SubjectPredictors provides names of predictors | ||
Line 373: | Line 374: | ||
- to restrict stats to voxels with brain data, keep the multiplication box checked; potentially alter the minimum anatomical value to increase/ | - to restrict stats to voxels with brain data, keep the multiplication box checked; potentially alter the minimum anatomical value to increase/ | ||
- higher interpolation (cubic/ | - higher interpolation (cubic/ | ||
+ | |||
+ | ===== Using the new 3D rendering tool with skull ===== | ||
+ | Jochen Email | ||
+ | - download and install the latest snapshot: http:// | ||
+ | - then use " | ||
+ | - when you next open the NeuroElf GUI, load the following VMR/ | ||
+ | - in the main UI, ensure that the colin_hires_ICBMnorm.vmr is selected | ||
+ | - use the render button (below the surface view button) on the right side to switch to render view | ||
+ | - in the newly open render UI, select the colin_brain_rendskull_ICBMnorm.vmr dataset as the "Alpha volume" | ||
+ | - once the rendering is complete, you can use the same controls as for the surface view (mouse; with shift to translate and alt to zoom; and also cursor keys) | ||
+ | |||
+ | When you want to add a stats map (or several maps), please know that each map will be resampled into the resolution of the anatomical prior to rendering, so to display 3 stats maps (at the same time) on top of the high-res colin brain, you probably need between 2 and 3 GB free memory! Also, for stats maps, I suggest changing them to " | ||
===== Drawing/ | ===== Drawing/ |
ajay/neuroelf_usage_notes.txt · Last modified: 2016/08/03 20:36 by ajay