open-discussion > VTK Feature Extraction
Sep 28, 2014  06:09 PM | vsochat
VTK Feature Extraction
Hi NITRC,

Does anyone have any recommendations for software / method to extract features from .vtk files (brain tractography?)  The file itself is just a big text file of numbers (I'm guessing coordinates), and so I'm also guessing that many have done this before, and I don't need to start from scratch.  Any software, methods, or tutorials would be greatly appreciated.  Thanks!

Here is some documentation about the files, if needed:


This .zip file contains cortical surface annotations for structures sampled in the BrainSpan developmental transcriptome project (http://brainspan.org/) for the Stage_3A_14_pcw specimen. The annotated surfaces are stored as VTK files named as follows:

- Complete surface with vertex labels: {age}_{hemisphere}.vtk
- Surface patch for single structure: {age}_{structure_acronym}_{hemisphere}.vtk

See the BrainSpan white paper for structure acronym definitions. The VTK file format represents each surface as a set of triangles with 3D vertex coordinates. The top of the file first lists all of the (x,y,z) vertex coordinates in the file. The section section of the file consists of a set of vertex indices for triangle in the surface. The file containing the complete cortical surface will have a third section listing label IDs for each vertex listed in the first section. To see a label ID's corresponding structure, open the 'Structure.csv' file also contained in this .zip file. Each row of the CSV describes a structure and lists its label ID. For more details, see the VTK file format documentation (www.vtk.org/VTK/img/file-formats.pdf).

Best,

Vanessa

Threaded View

TitleAuthorDate
VTK Feature Extraction
vsochat Sep 28, 2014
Shekhar Chandra Nov 27, 2014
John Del Gaizo Sep 29, 2014