Pyvox (formerly known as BBLimage) is a set of software tools for medical image processing, particularly skull stripping and segmentation of MR brain images (tools to support other applications may be added later). These tools are intended to support researchers who need to prototype new image analysis algorithms or to develop automated image analysis tools for specific image analysis applications. The sequence of processing operations is specified through the scripting language Python, which can be used interactively or in command files. Pyvox scripts and date files are portable, easily extensible, and suitable both for rapid prototyping of new algorithms and analysis protocols, and also for efficient, automated processing of the finished analysis protocols.