Focalplane.biologists.com (16)#
Annotating 3D images in napari#
Mara Lampert
Tags: Python, Napari, Bioimage Analysis, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2023/03/30/annotating-3d-images-in-napari/
Collaborative bio-image analysis script editing with git#
Robert Haase
Licensed CC-BY-4.0
Introduction to version control using git for collaborative, reproducible script editing.
Tags: Sharing, Research Data Management, Include In Dalia
Content type: Blog Post
Creating a Research Data Management Plan using chatGPT#
Robert Haase
Published 2023-11-06
Licensed CC-BY-4.0
In this blog post the author demonstrates how chatGPT can be used to combine a fictive project description with a DMP specification to produce a project-specific DMP.
Tags: Research Data Management, Artificial Intelligence, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2023/11/06/creating-a-research-data-management-plan-using-chatgpt/
DL4MicEverywhere – Overcoming reproducibility challenges in deep learning microscopy imaging#
Iván Hidalgo-Cenalmor
Published 2024-07-29
Licensed UNKNOWN
Tags: Bio Image Analysis, Artifical Intelligence, Include In Dalia
Content type: Blog Post
Feature extraction in napari#
Mara Lampert
Tags: Python, Napari, Bioimage Analysis, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2023/05/03/feature-extraction-in-napari/
From Click to Code: Reproducibility in Bio-image Analysis#
Mara Lampert
Published 2025-08-05
Licensed CC-BY-4.0
This blog post revolves around reproducibility in bio-image analysis across several popular platforms, including Napari, Fiji, QuPath, Galaxy, CellProfiler and JIPipe.
Tags: Bioimage Analysis, Include In Dalia
Content type: Blog Post
How to write a bug report#
Mara Lampert
Tags: Github, Python, Science Communication, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2024/04/03/how-to-write-a-bug-report/
If you license it, it’ll be harder to steal it. Why we should license our work#
Robert Haase
Licensed CC-BY-4.0
Blog post about why we should license our work and what is important when choosing a license.
Tags: Licensing, Research Data Management, Include In Dalia
Content type: Blog Post
Managing Scientific Python environments using Conda, Mamba and friends#
Robert Haase
Licensed CC-BY-4.0
Tags: Python, Conda, Mamba, Include In Dalia
Content type: Blog Post
OMERO Outputs: Insights from the 4th BioHackathon 2025#
Lea Kabjesz
Licensed CC-BY-4.0
Tags: Microscopy Analysis, Hackathon, Bioimaging, OMERO
Content type: Blog Post
https://focalplane.biologists.com/2025/12/17/omero-outputs-insights-from-the-4th-biohackathon-2025/
Prompt Engineering in Bio-image Analysis#
Mara Lampert
Tags: Python, Jupyter, Bioimage Analysis, Prompt Engineering, Biabob, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2024/07/18/prompt-engineering-in-bio-image-analysis/
Quality assurance of segmentation results#
Mara Lampert
Tags: Python, Napari, Bioimage Analysis, Include In Dalia
Content type: Blog Post
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, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2023/03/02/rescaling-images-and-pixel-anisotropy/
Tracking in napari#
Mara Lampert
Tags: Python, Napari, Bioimage Analysis, Include In Dalia
Content type: Blog Post
https://focalplane.biologists.com/2023/06/01/tracking-in-napari/