petebankhead
I do things related to open science & bioimage analysis. One of them is http://qupath.github.io. Another is http://bioimagebook.github.io.
University of EdinburghEdinburgh
Pinned Repositories
bioimagebook.github.io
An introduction to bioimage analysis - http://bioimagebook.github.io
2022-qupath-cell-detection
Images & code to visualize to illustrate the challenges image analysis in pathology
ARIA
Retinal vessel analysis software for MATLAB
imagej-intro
OUT-OF-DATE! The new book is at https://bioimagebook.github.io
qupath
QuPath - Open-source bioimage analysis for research
petebankhead's Repositories
petebankhead/qupath
QuPath - Open-source bioimage analysis for research
petebankhead/bioformats
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.
petebankhead/bioimagebook.github.io
An introduction to bioimage analysis - http://bioimagebook.github.io
petebankhead/qupath-extension-instanseg
Fork of the official InstanSeg extension
petebankhead/qupath-extension-liverquant
A QuPath extension to run the Liverquant algorithm
petebankhead/qupath-extension-sam
QuPath extension for Segment Anything Model (SAM)
petebankhead/qupath-extension-template
Template to help create a new QuPath extension
petebankhead/qupath-fxtras
Reusable JavaFX tools for QuPath (and beyond)
petebankhead/qupath.github.io
GitHub pages site
petebankhead/analysis-parameter-demo
petebankhead/CPU-sampler-extension
petebankhead/djl
An Engine-Agnostic Deep Learning Framework in Java
petebankhead/i2k2024
petebankhead/jts
The JTS Topology Suite is a Java library for creating and manipulating vector geometry.
petebankhead/log-viewer
petebankhead/openslide-check
Minimal repo to check if OpenSide can be loaded from Java
petebankhead/openslide-crossplatform-builds
petebankhead/qupath-docs
QuPath documentation
petebankhead/qupath-extension-align
QuPath extension to interactively align images
petebankhead/qupath-extension-bioimageio
A QuPath extension for working with the Bioimage Model Zoo (https://bioimage.io)
petebankhead/qupath-extension-djl
A QuPath extension for working with Deep Java Library (https://djl.ai)
petebankhead/qupath-extension-jpen
QuPath extension using JPen for graphics tablet input
petebankhead/qupath-extension-omero
QuPath extension to work with images through OMERO's APIs
petebankhead/qupath-extension-py4j
A QuPath extension for linking up to Python via Py4J (https://www.py4j.org)
petebankhead/qupath-extension-stardist
QuPath extension to run StarDist nucleus detection
petebankhead/qupath-extension-training
A QuPath extension to help with learning the software
petebankhead/qupath-extension-wsinfer
QuPath extension to work with WSInfer - https://wsinfer.readthedocs.io/
petebankhead/qupath-gradle-plugin
Gradle plugins to help create QuPath extensions
petebankhead/qupath-gradle-scripting-project
petebankhead/wsinfer
:fire: :rocket: Blazingly fast pipeline for patch-based classification in whole slide images