hallvaaw / awesome-biological-image-analysis
A curated list of software, tools, pipelines, plugins etc. for image analysis related to biological questions.
☆120Updated last month
Related projects ⓘ
Alternatives and complementary repositories for awesome-biological-image-analysis
- A self-explanatory, hands-on intro to bioimage analysis in python. Slightly outdated but still much liked by learners.☆91Updated last year
- Lecture materials "Bio-image analysis, biostatistics, programming and machine learning for computational biology" at the Center of Molecu…☆198Updated last year
- An introduction to bioimage analysis - http://bioimagebook.github.io☆59Updated 3 months ago
- NEUBIAS Academy @Home: Interactive Bioimage Analysis with Python and Jupyter☆62Updated last year
- This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biolo…☆132Updated 4 years ago
- Toolbox for the analysis of smFISH images.☆57Updated last year
- Lectures for a napari training course☆50Updated last year
- CellProfiler tutorial pipelines and images☆83Updated 2 weeks ago
- A platform for compiling, analyzing, and exploring tracking data☆41Updated last week
- ☆10Updated 3 years ago
- Notebooks to illustrate how BigFISH is working.☆13Updated 2 years ago
- Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images☆69Updated this week
- A Python GUI-based framework for segmentation, tracking and cell cycle annotations of microscopy data☆131Updated this week
- Loading and handling microscopy data in blender☆93Updated last month
- ☆37Updated 3 months ago
- ☆27Updated 2 years ago
- BIA Bob is a Jupyter+LLM-based assistant for interacting with image data and for working on Bio-image Analysis tasks.☆92Updated last week
- ☆66Updated 4 months ago
- Python Jupyter notebooks for BioImageAnalysis, GPU-accelerated image processing, bio-image data science and more☆125Updated 2 months ago
- Python package for processing image-based profiling data☆79Updated this week
- ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration☆126Updated 2 months ago
- Community-contributed and experimental CellProfiler modules.☆58Updated last month
- an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.☆64Updated last month
- DeepSpot is a deep learning method for the enhancement of mRNA fluorescent spots in microscopy images☆13Updated 2 years ago
- A curated list of awesome cytodata resources☆73Updated 11 months ago
- Your Personal Assistant in Computational Bioimaging.☆35Updated 2 months ago
- Feature extraction for labeled objects in images using regionprops from scikit-image☆47Updated last month
- An ImageJ/Fiji plugin designed to effortlessly integrate Segment-Anything models (SAMs) without code.☆53Updated last week
- Collection of tools and scripts useful to automate microscopy workflows in ZEN Blue using Python and Open Application Development tools a…☆127Updated 3 months ago
- Segmentation method able to detect membrane/nuclei-labelled cells with low signal-to-noise ratio and dense packing in 2D and 3D. Availabl…☆33Updated this week