AKA Math's Projects
Atomic Surface Transformations for Radiotherapy quality Assurance
Repository for materials related to the biomedical engineering lab
general code samples in C++, python and MATLAB.
This repository supports our recent MedNeurIPS 2022 abstract on the importance of context versus foreground-to-background ratio in segmentation tasks.
MATLAB implementation of the CSA ODF Algorithm. More at: http://conservancy.umn.edu/handle/11299/140183
How Sensitive Are Deep Learning Based Radiotherapy Dose Prediction Models To Variability In Organs At Risk Segmentation?
DOSELO (Dose Segmentation Loss Function): Dose Guidance for Radiotherapy-oriented Deep Learning Segmentation
The fastai book, published as Jupyter Notebooks
Implementation of the GPSSI paper
This is a demonstration of how transformation matrices affect registration for the rigid case.
this is a simple image viewer based on QT 4.8 It is an extension of the tutorial at http://qt-project.org/doc/qt-4.8/widgets-imageviewer.html
A simple image object framework to read and write image files.
Medical Image Analysis Lab (MIALab), University of Bern
Source code accompanying O'Reilly book: Machine Learning Design Patterns
This is an interactive Monty Hall problem demonstration with a MATLAB UI.
Develop dose prediction models for knowledge-based planning in radiotherapy
Open Source Computer Vision Library
Tensorflow Code for "PHiSeg: Capturing Uncertainty in Medical Image Segmentation", Proc. MICCAI 2019
Opensource radiation treatment planning system in Python
Python-based Radiotherapy Dicom Segmentation library (PyRaDiSE)
The repository provides code for running inference with the SegmentAnything Model (SAM), links for downloading the trained model checkpoints, and example notebooks that show how to use the model.
Stochastic Segmentation Networks
Library to compute surface distance based performance metrics for segmentation tasks.
This is a simple streamlit + OpenCV demonstration of template matching.