WormSizer: an open source application for detecting nematode size and shape.

A. The standard workflow of the application. The only manual step (the optional review) is depicted as a trapezoid. B. A system diagram depicting how WormSizer interacts with Fiji. WormSizer is written in Java as a Fiji plugin. Fiji plugins written in Java can utilize other Fiji plugins as well as any 3^rd party Java library. C. The output of WormSizer. Each worm in an input image is identified separately from others. Its contour is highlighted in yellow, its skeleton in blue, and the sampled radii in cyan. This image is shown to users and may be manually passed or failed. D. The volume calculation of WormSizer.