Napari (12)#
Annotating 3D images in napari#
[‘Mara Lampert’]
Tags: Python, Napari, Bioimage Analysis
Content type: Blog
https://focalplane.biologists.com/2023/03/30/annotating-3d-images-in-napari/
Bio-image analysis, biostatistics, programming and machine learning for computational biology#
[‘Anna Poetsch’, ‘Biotec Dresden’, ‘Marcelo Leomil Zoccoler’, ‘Johannes Richard Müller’, ‘Robert Haase’]
Licensed CC-BY-4.0
Tags: Python, Bioimage Analysis, Napari
Content type: Notebook
Bioimage analysis with Napari#
[‘Fabrizio Musacchio’]
Licensed CC-BY-ND-SA-4.0
Tags: Python, Napari, Bioimage Analysis
Content type: Collection
https://www.fabriziomusacchio.com/teaching/teaching_bioimage_analysis/
Chris Halvin YouTube channel#
Licensed UNKNOWN
Tags: Napari, Python, Bioimage Analysis
Content type: Collection, Video
https://www.youtube.com/@chrishavlin
https://www.youtube.com/playlist?list=PLqbhAmYZU5KxuAcnNBIxyBkivUEiKswq1
Feature extraction in napari#
[‘Mara Lampert’]
Tags: Python, Napari, Bioimage Analysis
Content type: Blog
https://focalplane.biologists.com/2023/05/03/feature-extraction-in-napari/
Intro napari slides#
[‘Peter Sobolewski’]
Licensed MIT
Introduction to napari workshop run at JAX (Spring 2024).
Tags: Napari
Content type: Slides
https://thejacksonlaboratory.github.io/intro-napari-slides/#/section
Open Image Data Handbook#
[‘Kevin Yamauchi’]
Licensed CC-BY-4.0
Tags: Neubias, Research Data Management, Napari, Python, Bioimage Analysis
Content type: Book, Notebook
QM Course Lectures on Bio-Image Analysis with napari 2024#
[‘Marcelo Leomil Zoccoler’]
Licensed CC-BY-4.0
In these lectures, we will explore ways to analyze microscopy images with Python and visualize them with napari, an nD viewer open-source software. The analysis will be done in Python mostly using the scikit-image, pyclesperanto and apoc libraries, via Jupyter notebooks. We will also explore some napari plugins as an interactive and convenient alternative way of performing these analysis, especially the napari-assistant, napari-apoc and napari-flim-phasor-plotter plugins.
Tags: Napari, Python
Content type: Notebook
https://zoccoler.github.io/QM_Course_Bio_Image_Analysis_with_napari_2024
Quality assurance of segmentation results#
[‘Mara Lampert’]
Tags: Python, Napari, Bioimage Analysis
Content type: Blog
https://focalplane.biologists.com/2023/04/13/quality-assurance-of-segmentation-results/
Rescaling images and pixel (an)isotropy#
[‘Mara Lampert’]
Tags: Python, Napari, Bioimage Analysis
Content type: Blog
https://focalplane.biologists.com/2023/03/02/rescaling-images-and-pixel-anisotropy/
Tracking in napari#
[‘Mara Lampert’]
Tags: Python, Napari, Bioimage Analysis
Content type: Blog
https://focalplane.biologists.com/2023/06/01/tracking-in-napari/
ZEN & Python workshop#
Licensed GPL-3.0
Tags: Python, Napari, Bioimage Analysis
Content type: Collection, Notebook
zeissmicroscopy/ZEN_Python_OAD_workshop