Repository Index

Automated 3D cell detection in very large images

• microscopy
• cell-detection
• deep-learning
• image-analysis

Automated 3D brain registration with support for multiple species and atlases.

• registration
• atlases
• brain
• neuroscience

Nellie: Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy

• biology
• fluorescence
• image-analysis
• image-processing

Gaussian processes and Bayesian optimization for images and hyperspectral data

• image-processing
• hyperspectral-images
• gaussian-processes
• bayesian-optimization

Lattice light-sheet post-processing utility.

• microscopy
• light-sheet
• image-processing
• image-analysis

An interactive image processing program for biologists written in Python.

• biologists
• python
• imagej
• calcium

Accurate segmentation of bacterial microscope images using deep learning synthetically generated image data.

• microscopy
• image-processing
• segmentation
• biology

A python package to analyze the matrix fiber orientation and intensity around cells in fiber matrices (as a proxy for cellular forces).

• imaging
• microscopy
• contractility
• collagen

Panoptic segmentation algorithms for 2D and 3D electron microscopy images

• deep-learning
• semantic-segmentation
• segmentation
• pytorch