Download PathwaysTM 4 Software User's Guide

In a simple microarray geometry, such as the one shown below, the user may choose to have a
single template that lies on top of the global bounding box (this is the default configuration for
the Array Designer).
Once this template is overlaid on the experimental image, PathwaysTM will generate the seed
positions for each spot based upon a comparison of the template in the ideal coordinates versus
the position of the template in the overlay in the experimental image.
Often the manufacturing process for microarrays introduces known offsets in spot positions
based upon the mechanical devices that create the microarray. For example, each subgrid in a
microarray layout with multiple subgrids might be offset from the other subgrids due to the
manufacturing process.
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RGMA10011 rev B