microfluidic image stack processing

NOTE: Pre-alpha tools, functionality subject to change without notice!

Some miscellaneous tools helpful for working with image stacks (with microfluidic structures). Currently contains the following utilities:

Registration routine from molyso, will automatically register the input stack and possible additional channels.

> python -m mfisp.registration --output result.tif --channel 0 input.tif

Automatic rotation detection and de-rotation from molyso. (Hint: Try to have OpenCV installed for your Python version, otherwise the rotation will be very slow. Windows users take a look here.)

> python -m mfisp.autorotate --output result.tif --channel 0 input.tif

Uses the register and autorotate functionality as described above, and detects rectangular growth structures as region of interst (ROI). The resulting stack will contain only the ROI.

> python -m mfisp.boxcrop --output result.tif --channel 0 input.tif

2-clause BSD.