Anima provides a set of software tools contributed by and coming from the research works from the Empenn research team. It is a set of ITK / VTK based libraries and multi-platform command line tools for medical image analysis. Among other tools, it contains software for image registration (linear and non linear block matching registration, EPI distortion correction), statistical analysis (group comparison, patient to group comparison), diffusion imaging (model estimation, tractography, etc.), quantitative MRI processing (quantitative relaxation times estimation, MR simulation), image denoising and filtering, and segmentation tools (Graph cut segmentation and multiple sclerosis lesion segmentation).
Anima core software tools are also the base for Anima scripts, a set of python scripts and additional data from the Empenn research team, to perform complex preprocessing and core processing tasks on medical images such as diffusion imaging, atlasing, brain extraction, relaxometry.
Referencing Anima and Anima scripts
So far, there is no paper on Anima or Anima scripts which you can cite directly. If you are using Anima for your research, please take the time to:
- cite the relevant papers referenced in the documentation
- add a sentence in your acknowledgments section or footnote in the methods part of your paper referencing the RRID of Anima: RRID:SCR_017017 or Anima scripts: RRID:SCR_017072 (should be written like this to ensure it is recognized by search bots), as well as the main website address: https://anima.irisa.fr
Do not hesitate to contact us on the firstname.lastname@example.org if you have any doubts. Thanks !