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OME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological light microscopy data. A joint project between universities, research establishments and industry in Europe and the USA, OME has over 20 active researchers with strong links to the microscopy community. Funded by private and public research grants, OME has been a major force on the international microscopy stage since 2000.
Read and write Neuroglancer datasets programmatically.
Collection of tools and scripts useful to automate microscopy workflows in ZEN Blue using Python and Open Application Development tools and AI tools.
A collection of tools for painting super-resolution images
Accurate and efficient spot detection for microscopy data
The python-microscopy environment - an open-source package for light microscopy
Gaussian processes and Bayesian optimization for images and hyperspectral data
Lattice light-sheet post-processing utility.
An interactive image processing program for biologists written in Python.
Accurate segmentation of bacterial microscope images using deep learning synthetically generated image data.
A python package to analyze the matrix fiber orientation and intensity around cells in fiber matrices (as a proxy for cellular forces).
#ZVQ - Zebrafish Vascular Quantification - https://doi.org/10.1242/dev.199720
Panoptic segmentation algorithms for 2D and 3D electron microscopy images