Using Fiji from Python-based software

Using Fiji from Python-based software | Gabriel Selzer | October 30th, Virtual I2K 2024
Authors: Gabriel Selzer, Center for Quantitative Cell Imaging, University of Wisconsin-Madison; Mark Hiner, Center for Quantitative Cell Imaging, University of Wisconsin-Madison; Curtis Rueden, Center for Quantitative Cell Imaging, University of Wisconsin-Madison
Description: The Python software ecosystem has become a platform of choice for many image analysts, providing the Python scientific stack, deep learning toolkits, and visual tools like napari. In this workshop, you will learn how to combine Fiji with Python-based tools, including the napari user interface, as well as Python scripts, REPLs, and Jupyter notebooks. You will learn how to run Fiji/ImageJ commands such as TrackMate on input image data from napari, sending the computation results (such as images, regions of interest, and tracks) back to napari for further visualization and analysis.
Pre-Workshop Instructions: Please install napari-imagej as described at napari.imagej..... If you have trouble installing it, you can post (before October 28 please!) on forum.image.sc/ in the "Usage & Issues" category and tag @gselzer and @ctrueden and we will try to help.
Keywords: python, fiji, imagej, napari, numpy, napari-imagej, jupyter,

[@riccvven2078]

yep love u, thinking of using it in my research

[@riccvven2078]

May i ask u a practical question?