Pete's Projects
A brief glossary of image processing terms for pathologists
Images & code to visualize to illustrate the challenges image analysis in pathology
Retinal vessel analysis software for MATLAB
Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.
An introduction to bioimage analysis - http://bioimagebook.github.io
Bioimage analysis pipelines to detect cells (nucleus + cytoplasm) and generate label images with the aim of establishing an object hierarchy
A Java package for generating and using linear and categorical colormaps.
Python specific core utilities for interpretation of specification files of the bioimage model zoo
An Engine-Agnostic Deep Learning Framework in Java
Testing the use of Deep Java Library with TensorFlow & other JavaCPP dependencies
A simple ImageJ plugin to simulate blur and noise from fluorescence imaging
Gradle plugins to automate the build process of JavaCPP and JavaCV
Experimental homebrew tap for QuPath-related dependencies
Checking how to apply ICC Profiles in Python and Java
Various scripts written for image analysis utilities
OUT-OF-DATE! The new book is at https://bioimagebook.github.io
ImageJ plugins written to help develop https://bioimagebook.github.io
Wayne Rasband's ImageJ 1.x repository, updated once a night. To develop this code, use https://github.com/imagej/ImageJA.
Example ImageJ plugins to convert ROIs to and from GeoJSON
Java specific core utilities for interpretation of specification files of the bioimage model zoo
Project providing a simple template for creating a JavaFX UI component for use with QuPath
Java library for accessing pen/digitizer tablets and pointing devices
A community dedicated to supporting tools for technical and scientific communication and interactive computing
Trained models for use with QuPath
OME image compression (coder-decoder implementations)