navigate-photoactivation is a plugin for navigate, the open-source Python package designed for the control of light-sheet microscopes. navigate offers easily reconfigurable hardware setups and automated acquisition routines, making it a powerful tool for advanced imaging techniques.
With navigate-photoactivation, users can perform targeted photo-stimulation of optogenetic biosensors, execute localization microscopy routines, and conduct fluorescence recovery after photobleaching (FRAP) and photo-switching experiments. The plugin allows these processes to be performed in response to user-specified criteria, enhancing the flexibility and precision of your imaging experiments.
To get started, follow these steps:
-
Download and install Miniconda.
-
Create a new environment and activate it:
conda create -n navigate python=3.9.7 conda activate navigate pip install navigate-micro navigate-photoactivation navigate
navigate-photoactivation is designed to operate as a feature in navigate. Currently, it performs photoactivation by raster scanning a region of interest (ROI) with two linear galvanometer mirrors. The user specifies the location where photoactivation should occur by right-clicking on the image and selecting 'Photoactivate Here'. Photoactivation can be triggered by a variety of events, can be performed in point, square, circular, and user-specific shapes, and can be repeated at user-defined intervals.
Currently, only designed to work with National Instrument's based data acquisition cards and linear galvanometers.
To learn more about navigate and navigate-photoactivation, please refer to the documentation.