Resources for Machine Learning & Image Analysis for Microscopy - Microlist

Bioimage Data Analysis Workflows ‒ Advanced Components and Methods

Desigingn and implementing bioimage analysis workflows

Weka

Data mining with open source machine learning software
Created by University of Waikato

Bioimage Model Zoo

Advanced AI models in one-click

Applied Machine Learning

Applied Machine Learning course at Cornell Tech

Center for Open Bioimage Analysis YouTube Channel

CellProfiler tutorials

Python tutorials for image processing

Python tutorials for image processing

Quantitative Phase Microscopy Software interface

GPU DHM
Created by Lee Lab @JCSMR

Deep Learning Based Segmentation For Biologists

An online workshop

Mesmerize: A highly versatile platform for calcium imaging analysis

Platform for Calcium imaging analysis
Created by Kushal Kolar, Daniel Dondorp, Marios Chatzigeorgiou

UC2 [YouSeeToo] - Open-Source Modular Optical Toolbox

Open-Source Modular Optical Toolbox for Microscopy
Created by B. Diederich, R. Lachmann, B. Marsikova, E. Bingöl, S. Carlstedt, X. Uwurukundo, H. Wang, R. Heintzmann, et al.
Licensed by CERN, GPL-v3, CC-BY-NC

Advanced Cell Classifier

Machine learning method for image data analysis
Created by Horvath Lab

Nucleaizer.org

A cell segmentation tool
Created by Horvath Lab

CSBDeep

A toolbox for Content-aware Image Restoration (CARE)
Created by Weigert M et al

Bioimage Analysis Course: Life cycle of an image data set

Graduate student level introduction to bioimage analysis

Image Tools Resource

List of open-source analysis software for bioimaging
Created by Image Data Resource

PyImageSearch

Object-recognition with Python/OpenCV

PatternUnmixer 2.0

Object type recognition for automated analysis
Created by Murphy Lab, Carnegie Mellon

CellOrganizer

Model learning tools
Created by Murphy Lab, Carnegie Mellon

ilastik

Interactive learning and segmentation toolkit
Created by Anna Kreshuk's lab, EMBL