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JuNkIE-CLImax: exploring multidimensional images in notebooks and the terminal
Rodrigo Fernandez-Gonzalez1,2,3,4, Raymond Hawkins1,2
1Institute of Biomedical Engineering, University of Toronto, Toronto, ON, CA.
None:
Modern microscopy generates multidimensional images. Graphical user interfaces allow visualization of multidimensional images, but image exploration is significantly harder in text-based environments. These include Jupyter notebooks, popular for the distribution of data analysis pipelines; and the terminal, often the only user interface available when accessing images in remote servers. We developed JuNkIE-CLImax, a pair of multidimensional image explorers designed to work in Jupyter notebooks and the terminal, respectively. JuNkIE-CLImax are written in Python, using Rust extensions to optimize performance; they are platform agnostic; and they provide application programming interfaces that enable integration into complex image visualization and analysis pipelines.
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