Polarized Light Microscopy Processing and Analysis Plugin

Polarised light microscopy (PLM) is a powerful, yet highly under-utilized, method for investigating the material and optical properties of samples. PLM operates by taking advantage of the known properties of birefringent material.

This team will complete the documentation, packaging, and distribution of the Python functions (e.g. a completed PyPi repository for installation) that have been developed by a postdoctoral fellow in the Modes Group for dual-dependent processing purposes. The project’s primary objective is to create and test a napari plugin from the completed Python package. To achieve this, the group will translate the Python functions to be executable in napari. This will allow additional flexibility for users depending on their comfort level and understanding of the input options. Once the initial version of the plugin is complete, the team will initiate collaborations with experimental biology research groups with topics ranging from phase separation to organ regeneration.

Successful development and testing of the plugin will enable PLM processing and analysis in napari, and benefit all of the collaborating experimental groups.