MBAT | Mouse BIRN Atlasing Toolkit

Reference biological/biomedical imagery has always been critically important for providing context for observations and experimentation. MBAT provides a workflow environment bringing together online resources, a user’s image data and biological atlases in a concise, unified and intuitive workspace. MBAT is written in java so it is platform independent and is extensible through it’s plugin architecture.

MBAT integrates three distinct workspaces for online search, image alignment (registration) and image display:

Search Workspace: able to submit a query to multiple databases simultaneously. More

Registration Workspace: performs 2D and 3D image alignment (spatial registration). More

Viewer Workspace: displays & composites images and image volumes using high performance graphics hardware. More

Atlas Viewer: allows navigation and interrogation of volumetric atlases. More

A wide range of 3D atlases available for use including:

• Adult and neonatal MRI and histological mouse brain
• MRI human brain (ICBM & LPBA40)
• MRI mouse development (Theiler Stage 13-26)
• MRI quail development (Embryonic Day 6-13)

• WindowsXP/Vista, Mac OS X 1.4+, Linux
• Java 1.6 or above
• OpenGL 1.5