1. A system for capturing imagery data using a line scan camera, comprising: at least one memory for imagery data; a motorized stage configured to support a microscope sample and move the microscope sample in an X axis direction and a Y axis direction; an objective lens positioned for viewing a portion of the microscope sample; a line scan camera optically coupled to the objective lens and configured to capture imagery data of the microscope sample as a plurality of image stripes where each image stripe comprises a plurality of scan lines; a positioning element configured to adjust a position of the objective lens in a Z axis direction; and a processor configured to instruct the positioning element to adjust the position of the objective lens in the Z axis during capture of a first stripe of imagery data and a second stripe of imagery data, the processor further configured to store a first plurality of image portions from the first stripe and a second plurality of image portions from the second stripe as a contiguous digital image in said at least one memory.