Mirrored CT meshes and changes to Group settings

[Beth Brainerd]

Dear XMALab Group members,

Increasingly I seem to be helping people troubleshoot a problem in which their bone and marker meshes are mirror images of what they should be. I have seen this both from Slicer and from Amira. If you are having problems creating rigid bodies in XMALab, or problems at the XROMM animation step in Maya, check your meshes to make certain they are not mirrored. 

Does anyone know how to mirror meshes back to their correct orientations in Slicer, Meshlab or other free software? If so, please send along the solution to everyone.

I changed the settings of this Google Group such that message subjects should start with [XMALab] — we’ll see with this message whether that worked! I also changed the default that messages come from the group which I think means that responses will go back to to the whole group. So make sure to change the recipient address if you mean to respond just to the sender.

best wishes,

Beth

Elizabeth Brainerd

Robert P. Brown Professor of Biology

Director, Keck XROMM Core Facility
Department of Ecology, Evolution and Organismal Biology
Brown University, Box G-B210
Providence RI 02912
o: 401-863-9261
www.brainerdlab.org
www.xromm.org 

she/her

[Gatesy, Stephen]

Hi All,

As different software interprets the axial (Z) dimension of CTs inconsistently, one solution would be to export the objs and then scale them by -1 in Z in Maya.  Obviously, you need to know your subject and your markers well enough to be able to tell which one is correct.

Let me know if this fails,

Steve

--

Stephen Gatesy
Dept. Ecology, Evolution, & Organismal Biology
Box G-B209
Brown University
Providence, RI 02912 USA
401-863-3770 (office)
401-863-9169 (lab)

[Avidan, Corrine]

I have also found a way in 3D Slicer (a program that reads in the CT scans mirrored). I will be creating a document about it today although it sounds easier in Maya.

Corrine

[Gignac, Paul]

Hi All,

Does anyone know how to mirror meshes back to their correct orientations in Slicer, Meshlab or other free software? If so, please send along the solution to everyone.

Mirroring a model in Slicer can be done with the "Mirror Model" module: https://www.slicer.org/wiki/Modules:ModelMirror-Documentation-3.6

In Avizo (not free, but including it here since I use it), you duplicate the surface, apply a -1 scalar to the relevant axis, and the extract the surface from the transform: https://www.youtube.com/watch?v=DV9EPModWUI

Under Blender you can use the "Mirror" modifier: https://docs.blender.org/manual/en/latest/modeling/modifiers/generate/mirror.html

Cheers,

Paul

...

Associate Professor

Director, CoM-T Global Graduate Programs

Department of Cellular & Molecular Medicine

University of Arizona 

College of Medicine, Tucson

Zoom ext. 384153

@diceCT

www.diceCT.com

---

From: Beth Brainerd <elizabeth...@brown.edu>
Sent: Wednesday, July 6, 2022 6:55 AM
To: XMALab <xma...@brown.edu>
Subject: XMALab Mirrored CT meshes and changes to Group settings

 

CAUTION: This email originated from outside of the organization. Do not click links or open attachments unless you recognize the sender and know the content is safe

Dear XMALab Group members,

Increasingly I seem to be helping people troubleshoot a problem in which their bone and marker meshes are mirror images of what they should be. I have seen this both from Slicer and from Amira. If you are having problems creating rigid bodies in XMALab, or problems at the XROMM animation step in Maya, check your meshes to make certain they are not mirrored. 

Does anyone know how to mirror meshes back to their correct orientations in Slicer, Meshlab or other free software? If so, please send along the solution to everyone.

I changed the settings of this Google Group such that message subjects should start with [XMALab] — we’ll see with this message whether that worked! I also changed the default that messages come from the group which I think means that responses will go back to to the whole group. So make sure to change the recipient address if you mean to respond just to the sender.

best wishes,

Beth

Elizabeth Brainerd

Robert P. Brown Professor of Biology

Director, Keck XROMM Core Facility
Department of Ecology, Evolution and Organismal Biology
Brown University, Box G-B210
Providence RI 02912
o: 401-863-9261
www.brainerdlab.org
www.xromm.org 

she/her

--

To unsubscribe from this group and stop receiving emails from it, send an email to xmalab+un...@brown.edu.

<Date Today> p3