Operating system: Mac OS 10.13 Slicer version: 4.11.20200930 Expected behavior: separate segmented volume in two segmented volume by a curved plane (drawn by markup points) Actual behavior: I am nuclear medicine physician and I am interested in quantification in nuclear medicine imaging. For in…

You can create curved surfaces driven by control points using Surface Cut effect in Segment Editor (provided by SegmentEditorExtraEffects extension). If you want to specify more concave surfaces then you may generate a model using MarkupsToModel extension (with Convexity>0 and Force convex output di…

Thank you very much for your response. I apologize because I forgot to ask how to draw a curved plane from markup points in different slice levels ie 2-3 points at the top of the liver (red view), 2-3 points at another z level (still red view but another slice). By the way, how a plane can split a …

I am not sure if you still have some questions. If you do, then please provide some more details, and preferable screenshots to illustrate what you would like to achieve.

thank you for your response. Yes in fact, I probably mis explained my target, here it is in image : [curved_segmentation] Also I have a second question : how can I make relative threshold (percentage) based on a local maximum ? : [relative_threshold] Thank you very much for your help

For the first question is this something like what you are building @RafaelPalomar ? Regarding your second question, that’s a mode I also want to implement for a PET project I’m involved with. Probably it can just be a simple segment editor effect that would be used as follows: use the Paint (or a…

We developed the “Surface cut” effect for segmenting liver segments. The effect is available in SegmentEditorExtraEffects extension. [image] hubelef: Also I have a second question : how can I make relative threshold (percentage) based on a local maximum ? : If you want to do this to avoid re…

I agree with the issues you pointed out, that SUVmax can be noisy and that a global threshold may be more robust, but I’ve been told that the 41% of local SUVmax is common in the clinical literature so we should at least support and make it easy to use. It may get surpassed by other measures when m…

[image] pieper: 41% of local SUVmax is common in the clinical literature I see. If there are commonly used clinical methods then they need to be implemented as they are, because there may be decades of accumulated data and experience using that specific metric. How the region is specified fo…

The way it was described to me, the radiologist drags out a rectangular ROI in the slice that looks hottest and gets the max from that and then that is used to get the 41% cutoff for that lesion. Sometimes people might use SUVpeak, which is like a top percentile or similar to minimize the effect of…

That is exactly what we’re doing in clinical use : drag a ROI (spherical for instance, but the paint effect could also be used) and then get the 41% (or another value, typically 40 to 43 % based on old studies) maximum value threshold (based on the SUV or from native series as computing SUV from nat…

Segmentation from curved plane by markup points

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hubelef (Hubele) April 2, 2021, 3:38pm 5

thank you for your response. Yes in fact, I probably mis explained my target, here it is in image :

Also I have a second question : how can I make relative threshold (percentage) based on a local maximum ? : Thank you very much for your help

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Segmentation from curved plane by markup points

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