This may have worked in some early versions but doesn’t work anymore. Re the CT question: It’s not supported to rename files to l* or gl* anymore since Lead-DBS now reconstructs electrodes hybridly in native and MNI space. ply format, select the patients in Lead-DBS and then choose Export -> PLY from the Tools Menu of the main Lead GUI.Įxporting to nifti in general is not the best idea since electrodes are not the best option to be voxelized (they are small and you’d need high resolution to do so).
Andyroid bit slicer software#
ply files in nearly any 3D visualization software including 3D Slicer and SurfIce. Regarding export from electrodes to nifti: Would it help you to be able to export to a different surface format?Į.g. So if I get the manually, this should be necessary? Or would it affect the reconstruction of the electrodes?Īnd thanks for a really nice software, I’m really curious about it. But back to the question, do you have any experience segmenting the electrode based on T1w image? I tried it and it seems to work, but having trouble checking cause I don’t get the nifti, of course there should be other ways of confirming but I’m prefer this until I found something better.Īnd have I understood it correctly that the normalization step is only for getting structures from template to my images. However, Medtronics updated guidelines give a little bit more space to increase the coverage of the T2w image for example, but not near the T1. The 3D_T1 is always included and covers the whole brain and cause no problem regarding SAR/B1+rms levels. So preferably we do postop MRIs – including a 3D_T1 image and T2w, PD or T2-STIR depending on target. But I believe that the black scene appears then as well. Usually I ask our neurosurgeon to manually delineate target structure so the only step i need to take is to register them.
Andyroid bit slicer registration#
Sometimes when manually defining the electrode artifact during reconstruction the images is just black – perhaps its because some pre-processing step is incomplete, I think this phenomena only occur when i skip registration and normalization – just change the postop_ct to lpostop_ct. I have been thinking about the scenario using post-op CT, however not as common at my institution but performed anyway from time to time. Is there any options or procedures that needs to be done before?Īnd I also have some general questions regarding lead-dbs. Though I’m getting the option to do the simulation after pressing the wand button – vat files in nifti format is produced during simulation but these files are just black. m file to work, actually I can seem to get any exported files at all – the folder headmodel is not created either. You’d need to send me your email address or similar.įirst of all, I experienced some difficulties getting the. This is being done for headmodel generation in the novel VAT model code. I can also provide you a script that will export the tips of the electrodes as nifti files, if you want. for an intranet server that you set up for your hospital. They are not uploaded to any real server or similar, it’s just that you can make results web-viewable e.g. stl format by pressing the cloud button (“Export to server”) in the 3D viewer. The electrodes can be exported to a JSON string which is similar to. To export final output for visualization in other software: Atlases are present as.
We will re-introduce the unilateral case support again in the future, just need to find the time to do so. This would trigger the functions as in the old version and should still work for most of the one-subject-only functions (even though I can’t guarantee it). In the normal case, this value is set to.
If you’re a little bit into programming, you can also set a breakpoint at the beginning of ea_autocoord.m (which is the main trigger function following the button press of “Run”) and set options.sides to either 1 (right lead only) or 2 (left lead only). In the 3D visualization viewer, you can then just deselect one of the leads. If it’s just for visualization, what you can do, however, is to set the entrypoint in the main lead GUI to “Manual” and just put two leads into the same artifact by clicking on it for both hemispheres. You wouldn’t think so, but especially in the lead_group analyses, including unilateral lead cases just makes the whole implementation a lot more complex. Unfortunately, for now, unilateral leads are not really supported (and they were, you’re right).
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