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Working in R&D focusing on deep learning, computer vision, large language models, software development, and statistical analysis.

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Selected open-source projects within medicine and other applications

Languages and Tools

keras

tensorflow

torch

python

R

Cpp

latex

pycharm

clion

Visual Studio Code

nsis

docker

Git

Actions

GitHub

André Pedersen's Projects

onnx2keras icon onnx2keras

Convert ONNX model graph to Keras model format.

optax icon optax

Optax is a gradient processing and optimization library for JAX.

painter icon painter

Painter & SegGPT Series: Vision Foundation Models from BAAI

pathology-streaming-pipeline icon pathology-streaming-pipeline

Use streaming to train whole-slides images with single image-level labels, by reducing GPU memory requirements with 99%.

pathology-whole-slide-data icon pathology-whole-slide-data

A package for working with whole-slide data including a fast batch iterator that can be used to train deep learning models.

pls-net icon pls-net

Reimplementation of the PLS-Net architecture used for lung lobe segmentation in CT

presimal2022 icon presimal2022

Material from a workshop in the PRESIMAL Autumn Research School 2022

qpdata-fixer icon qpdata-fixer

Simple program which converts the qpdata-names, such that if they are accessible in QuPath-0.1.2, if they were produced in a newer version

quickannotator icon quickannotator

An open-source digital pathology based rapid image annotation tool

quickpkg icon quickpkg

wrapper for pkgbuild to quickly build simple packages from an installed app, a dmg or zip archive.

qupath icon qupath

QuPath - Bioimage analysis & digital pathology

qupath-project-fixer icon qupath-project-fixer

Simple program that makes it possible to directly run other people's qupath projects, without the need to re-importing all images again.

raidionics-slicer icon raidionics-slicer

Automatic segmentation and generation of standardized clinical reports for the most common brain tumors, using MRI volumes

randstainna icon randstainna

RandStainNA: Simple and efficient augmentations for histology [MICCAI 2022]

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