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WhitakerLab / BrainsForPublication

Code and documentation for the Brains for Publication proposal for the 2016 OHBM Hackathon
MIT License
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NII->VTK->Render #1

Open cMadan opened 8 years ago

cMadan commented 8 years ago

Not sure how well it fits since I've already written up a methods paper, but I'm happy to share code related to this: http://f1000research.com/articles/4-466/.

KirstieJane commented 8 years ago

Hi @cMadan! This absolutely fits! The paper is brilliant and we should certainly promote it as part of this project :smiley:

I had imagined that the project would provide code to create images from the command line and I think your paper includes mostly instructions on how to make images "by hand". If you have some code to complement (compliment? :wink:) your paper that would allow us to go a little further rather than "just" say "Go read this paper"!

Thanks again for contributing!

cMadan commented 8 years ago

Hi @KirstieJane! I mostly agree with you. There is some code related to thresholding the NII file, but the NII-> VTK is done manually in ITK-SNAP, and the VTK-> Render is done manually in ParaView. I know there is now some NII->VTK code in the GIFTI toolbox, so that might help streamline the pipeline a bit, but I haven't yet used this code myself.

Anyways, I'll see what I can do to automate things a bit and will come back here :).