A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.
☆99Feb 17, 2023Updated 3 years ago
Alternatives and similar repositories for python-bioimage-analysis-tutorial
Users that are interested in python-bioimage-analysis-tutorial are comparing it to the libraries listed below
Sorting:
- A place to collect information used in lectures, demos, workshops, etc.☆17Sep 26, 2024Updated last year
- Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more☆153Jan 11, 2026Updated last month
- Imagej toolset to ease hyperstacks visualization and handling☆23Feb 9, 2026Updated 2 weeks ago
- Fiji macro for cutting confocal stacks at various depths relative to surface signal☆10Sep 28, 2020Updated 5 years ago
- This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biolo…☆135Apr 9, 2020Updated 5 years ago
- Lecture materials "Bio-image analysis, biostatistics, programming and machine learning for computational biology" at the Center of Molecu…☆233Sep 11, 2023Updated 2 years ago
- Various parts made for fluorescence microscopy + optics work☆16Jul 22, 2019Updated 6 years ago
- Quantitative analysis of cell motility behaviors☆13Feb 21, 2025Updated last year
- BIA Bob is a Jupyter+LLM-based assistant for interacting with image data and for working on Bio-image Analysis tasks.☆130Aug 7, 2025Updated 6 months ago
- Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)☆40Dec 17, 2025Updated 2 months ago
- Icons describing multiple microscopy techniques, as used by https://www.epfl.ch/research/facilities/ptbiop/equipment/☆11Mar 13, 2023Updated 2 years ago
- Introduction to Python Programming☆11Mar 31, 2020Updated 5 years ago
- Code for simulating a multi-view acquisition including attenuation, convolution, reduced sampling and poission noise☆13Jun 14, 2022Updated 3 years ago
- Interactive image stack viewing in jupyter notebooks based on ipycanvas and ipywidgets☆177Jan 17, 2026Updated last month
- Fast reconstruction of spatial networks from bioimages.☆25Apr 25, 2025Updated 10 months ago
- ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy☆630Dec 8, 2025Updated 2 months ago
- some useful function to get Label from ROIs and vice versa , and more!☆11May 3, 2023Updated 2 years ago
- GPU-accelerated image processing using CLIJ via pyimagej in python☆10Jan 8, 2021Updated 5 years ago
- A curated list of awesome Janelia software☆17Feb 26, 2025Updated last year
- Python library for control of microscope devices, supporting hardware triggers and distribution of devices over the network for performan…☆83Jan 13, 2026Updated last month
- A first intoduction to scripting in Fiji using the ImageJ Macro language.☆26Sep 26, 2024Updated last year
- ☆15Feb 5, 2025Updated last year
- Denoising via adaptive binning.☆13Jan 6, 2026Updated last month
- Deep convolutional neural networks for biological motion analysis☆14Jan 26, 2019Updated 7 years ago
- Accelerated Pixel and Object Classifiers (APOC)☆60Jul 18, 2025Updated 7 months ago
- Process and analyze surfaces using vedo in napari.☆25May 13, 2024Updated last year
- Automated Cell Toolkit☆24Oct 15, 2025Updated 4 months ago
- Create 3D/4D animations using a natural language-based syntax☆61Jun 6, 2025Updated 8 months ago
- Open source Python library for building bioimage analysis pipelines☆189Updated this week
- ☆18Oct 12, 2019Updated 6 years ago
- Feature extraction for labeled objects in images using regionprops from scikit-image☆55May 1, 2025Updated 9 months ago
- Command-line client for Fractal☆48Feb 16, 2026Updated last week
- A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.☆173Jan 27, 2026Updated last month
- Gamified image segmentation quality estimation☆19May 1, 2025Updated 9 months ago
- QuPath extension for Cellsparse☆19May 6, 2025Updated 9 months ago
- ☆19Feb 27, 2020Updated 6 years ago
- install libraries required to use qt on github action (does not install qt itself)☆18Oct 11, 2024Updated last year
- PSFj - Know your microscope fluorescence☆24Mar 6, 2020Updated 5 years ago
- Deep Learning Library for Single Cell Analysis☆473Aug 30, 2024Updated last year