Segment Anything for Microscopy

Image segmentation - general superpixel segmentation & center detection & region growing

nucleus/cell and histopathology image classification,detection,segmentation

Our solution for ICIAR 2018 Grand Challenge

Visualize, share and annotate your large 3D images online

Read and write Neuroglancer datasets programmatically.

A Python software library with a variety of functions for (optical) microscopy image restoration, reconstruction and analysis.

Mastodon – a large-scale tracking and track-editing framework for large, multi-view images.

Creating figures and animations for multi-channel images with a focus on microscopy.

Particle tracking by solving linear assignment problem.

Utils and convenience functions for large-scale bio-image analysis.

Generative Adversarial Network for single image super-resolution in high content screening microscopy images

Pure Python library for reading NIS Elements ND2 images and metadata

ZetaStitcher is a tool designed to stitch large volumetric images such as those produced by Light-Sheet Fluorescence Microscopes.

Distributed segmentation for bio-image-analysis

Label Free Prediction of Cell Painting from Brightfield Images

A Python library for easily calculating image-quality related features from images

Create web-based OME-Zarr galleries

img2vid

PiSCAT is a python-based package with a graphical user interface for performing high-performance analysis on a variety of iSCAT measurements.

CytoBrowser, a JavaScript and Node.js driven environment for fast and accessible collaborative online visualization, assessment, and annotation of very large microscopy images.

Deep Zoom Plate Viewer for microscopy images

This project is done for the Biomedicine, Biotechnology and Public Healthcare department of the University of Cádiz. They idea is to automatize the processing of the microscopic images of their experiments related to angiogenesis.

Analyse gigapixel images, annotated with millions of geometries, using a modern, highly-performant web interface.

Global Voxel Transformer Networks (GVTNets)

USB-C powered LED fixture that fits on top of a microscope objective

an ImageJ toolset for EM image analysis

Python package for microscope image stitching, robust to image pairs taken at different focal lengths and translations

napari plugin to open CZI image files and their metadata

Kaggle Nuclei Segmentation (top 4% solution)