Release Name: Anima scripts v3.0

Major update release of Anima scripts (along with Anima v4.0), a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform for most scripts (as long as python is available for your system), except for atlasing scripts that require an OAR scheduler. If you are using Anima scripts for your research, please take the time to:

  • Cite the relevant papers referenced in the documentation
  • Add a sentence in your acknowledgments section or in the methods part of your paper referencing the RRID of Anima: RRID:SCR_017017 (should be written like this to ensure it is recognized by search bots)
  • if possible, add the link to Anima website:

This new release contains the following updates:
  • Documentation has moved to read-the-docs for an easier to read version.
  • New general website for Anima and Anima scripts available
  • Requires Anima v4.0 or higher
  • Atlasing scripts now produce all their main results in a residualDir folder and better support input file extensions
  • Updated atlas for brain extraction in additional data
  • Minor bug corrections in diffusion and relaxometry scripts