Virtual RatBrain


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Warping Tool

Warping Tool allows data files to be loaded and 'warped' into the global coordinate system of the reference brain. It supports Microbrightfield's Neurolucida files and MDPlot's Accustage files. The warping algorithm requires several markers, uniquely identifiable points, to be labeled in both the data file and the reference, or scaffold brain, and produces an affine transformation which transform the data file into the reference coordinate space. These warp points are specified by clicking on particular markers in the data set and the corresponding points in the reference brain, both of which are displayed on screen at the same time. The warped data is stored in the database using the XML-based MorphML format; the tool also works in an off-line mode, for working on datasets on the local file system.