Operating system: Mac OS
Slicer version: 4.9.0
I am a Neuroradiology Fellow with some background in Biomedical Engineering in Buenos Aires, Argentina and for the past 6 months I’ve been working with Texture Analysis. At first it was pretty hard to learn about different software in the market and which one would suit me best. Fortunately I got to understand Slicer a bit more after my visit at RSNA Congress in Chicago and now I am trying to do some research regarding the phenotype of brain gliomas.
So far, I am working with T1WI post Gd (volumes) from two different 3T GE Magnets.
The first step of my project would be to obtain textural features and then decide whether to discriminate them between high or low grade gliomas or to analyze different molecular markers and gene mutations.
If I get good results with this I will write later with questions on how to use Slicer on Knime. But first things first. These are a couple of screen captures regarding the steps I am doing with every different tumor.
Please feel free to write any suggestions or corrections you consider appropriate.
- loading the volume
- normalizing the volumen with SimpleFilters extension
- manual segmentation of entire tumor (shall I consider only the slice with the largest transverse diameter or the entire tumor?)
- obtain the detailed texture features with the PyRadiomics extension