Center for Brain Science Institute, RIKEN BSD License Yes NITRC atlasBREX: Automated template-derived brain extraction in animal MRI sh/bash Due to optimization for the human brain, most common skullstripping/brain-extraction methods achieve insufficient results for non-human brains, which then require further manual intervention. Making use of the available brain-extraction from a template/atlas, this approach implements brain-extraction through reversal (rigid- and non-rigid) deformation of a template-derived mask. -time-saving and straightforward (with various optional parameters for further optimization) -multi-step registration (2- or 3-step) for improved registration to low resolution datasets -robust FSL (FLIRT, FNIRT) or ANTs (SyN) registration frameworks -compatible with T1-/T2-weighted datasets Please cite: atlasBREX: Automated template-derived brain extraction in animal MRI Scientific Reports, volume 9, Article number: 12219 (2019) DOI: 10.1038/s41598-019-48489-3 atlasBREX: Automated template-derived brain extraction in animal MRI MR, BSD License, sh/bash, NIfTI-1, Algorithm or Reusable Library, Other Software Resource, Workflow, Atlas Application, 5 - Production/Stable/Mature, End Users, Developers, English http://www.nitrc.org/projects/atlasbrex/, http://https://github.com/jlohmeier/atlasBREX