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Clinica Documentation

What is Clinica?


Clinica can be installed on Mac OS X and Linux (CentOS or Debian/Ubuntu) machines, and possibly on Windows computers with a Linux Virtual Machine. We assume that users installing and using Clinica are comfortable with using the command line.

Clinica on GitHub!

Clinica has moved to GitHub, you can find the repo here.

User documentation

Clinica environment

Pipelines (clinica run)

Dataset converters (clinica convert)

I/O tools (clinica iotools)

Visualize pipeline outputs (clinica visualize)

Clinica allows visualization of the main outputs of some pipelines. Currently only supported for the t1-freesurfer pipeline.

Clinica at conferences

Find on this page the presentations and demo materials used when we showcase Clinica.



Clinica is distributed under the terms of the MIT license given here.

Citing Clinica

For publications or communications using Clinica, please include the following text:

Citing Clinica

Analyses were performed using the Clinica software platform ( developed by the ARAMIS Lab (

Each pipeline's page includes text to cite the software packages that are used by Clinica. Use them depending on the specific pipelines that you used (for example, citing SPM when using the t1-volume pipeline).


Clinica is a software for research studies. It is not intended for use in medical routine