Tool/Resource: Anima scripts - News

Anima scripts v3.3 released

ocommowi@www.nitrc.org (Olivier Commowick) — Fri, 29 Jul 2022 13:28:03 GMT

We are happy to announce a feature update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This release adds scripts for EM-based three tissue classes extraction with an atlas prior. It also comes with new additional data needed for some scripts.

Anima scripts v3.2 released

ocommowi@www.nitrc.org (Olivier Commowick) — Wed, 12 Jan 2022 13:49:34 GMT

We are happy to announce a feature update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This release adds preprocessing scripts for MS lesions or new lesions extraction.

Anima scripts v3.1 released

ocommowi@www.nitrc.org (Olivier Commowick) — Tue, 01 Jun 2021 13:43:28 GMT

We are happy to announce a feature update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This release includes new additional data, along tracts statistics scripts and a preprocessing script for the 2021 new MS lesions segmentation challenge.

Anima scripts v3.0.1 released

ocommowi@www.nitrc.org (Olivier Commowick) — Tue, 23 Feb 2021 18:23:57 GMT

We are happy to announce a bug fix release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This release includes some bug fixes and an easier to use installation script.

Anima scripts v3.0 released

ocommowi@www.nitrc.org (Olivier Commowick) — Tue, 08 Sep 2020 12:32:38 GMT

We are happy to announce a major update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

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

Anima scripts v2.2 released

ocommowi@www.nitrc.org (Olivier Commowick) — Thu, 12 Mar 2020 20:13:08 GMT

We are happy to announce a major update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This new release contains the following updates:
- New multi atlas segmentation script on an OAR cluster
- New T2 relaxometry processing script for mono T2 and myelin water fraction estimation
- Other minor bug corrections

Anima scripts v2.1 released

ocommowi@www.nitrc.org (Olivier Commowick) — Mon, 25 Nov 2019 14:07:07 GMT

We are happy to announce a major update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This new release contains the following updates:
- Bug corrections in longitudinal atlas creation
- Online atlasing following the method presented in Legouhy et al. Miccai 2019 paper
- new additional data packaging and structure

Anima scripts v2.0 released

ocommowi@www.nitrc.org (Olivier Commowick) — Tue, 02 Apr 2019 14:20:54 GMT

We are happy to announce a major update release of Anima scripts, a set of scripts that use Anima to perform complex preprocessing and core processing tasks on medical images. This repository is multi-platform (as long as python is available for your system). Atlasing scripts require an OAR scheduler. We hope this release will help your research in some way !

This new release contains the following updates:

- Requires Anima v3.2 or higher
- Brain extraction now includes an option to further refine the initial mask
- Atlas creation scripts are now python based
- Longitudinal atlas creation scripts
- Several bug corrections and updates to newer version of Anima
- MS segmentation preparation script (registration, denoising and bias correction for further analysis on a reference)

Anima scripts v1.0 released

ocommowi@www.nitrc.org (Olivier Commowick) — Mon, 10 Sep 2018 13:10:15 GMT

We are happy to announce the initial release of Anima scripts, 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 Linux and an OAR scheduler.

This initial release contains the following scripts:

- Atlas-based brain extraction
- Atlas creation from anatomical or DTI images
- Diffusion images pre-processing and multi-compartment models estimation