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[SCIRUN-USERS] Re: cleaning the geometry

Chronological Thread 
  • From: Dana Brooks <>
  • To: Caro Wessel <>
  • Cc:
  • Subject: [SCIRUN-USERS] Re: cleaning the geometry
  • Date: Sun, 18 Nov 2012 12:38:15 -0500

Carolina,  hi,

As it happens I am working with a group at Northeastern (I am part of CIBC but located at NU not in Utah) that is also using Seg3D to create label maps from 3D breast volumes. Are you working on MR images? or some other imaging technology ? (We are using digital breast tomosynthesis volumes.)

And like you we are using these label maps to create a mesh (we use a free package called isomesh at the moment) and then use a standard FE package to do some simulations. We also do some downsampling before we do the meshing, and there are many ways to go about doing that downsampling.

Let me know what imaging technology you are using to get the breast volumes and then I will send your question to the folks working on this locally to see what they suggest.

best regards,


Dana H. Brooks
Professor, ECE Dept.
Northeastern University

On 11/17/12 4:52 PM, Caro Wessel wrote:" type="cite">
Dear all,
I've been segmenting a breast (including fibroglandular tissues) with Seg3D and creating the geometry with SCIRun to import into Abaqus and then mesh.
My problem is, even if i downsample and smooth, I still get too many points. As the model is too big, running in Abaqus takes forever or crashes.
I understand i could use commercial software (such as Geomagic) to clean the geometry. So, the question is, do you know of any extra tools people have developed within SCIRun to clean the geometry? Or do you happen to know of any freeware software that can read .vtk and do the job?

Thank you!!


«Si los pueblos no se ilustran, si no se vulgarizan sus derechos, si cada hombre no conoce lo que vale, lo que puede y lo que se le debe, nuevas ilusiones sucederán a las antiguas, y después de vacilar algún tiempo entre mil incertidumbres, será tal vez nuestra suerte mudar de tiranos sin destruir la tiranía». Mariano Moreno,  1810,  La Gaceta

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