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Open source processing scripts using Anima tools
Python
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atlasing
brain_extraction
diffusion
ms_lesion_segmentation
relaxometry
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License.txt
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README.md

Anima-Scripts-Public

Open source scripts for medical image processing from the Empenn team

This repository includes python scripts (for execution on a standalone platform and some on an OAR cluster). Their goal is to combine several tools from Anima public to accomplish more complex tasks (atlasing, diffusion imaging, brain extraction...).

Installation

Anima-Scripts-Public only requires two packages and a data package:

Installation requires only a few steps described in the installation page

Reference Anima scripts

If you are using Anima scripts for your research, please take the time to:

  • Cite the relevant papers referenced in the other pages of this documentation wiki or in Anima
  • Add a sentence in your acknowledgments section or in the methods part of your paper referencing the RRID of Anima: RRID:SCR_017017, and the one of Anima scripts: RRID:SCR_017072 (should be written like this to ensure it is recognized by search bots)
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