Chair of IT Infrastructure for Translational Medical Research

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45 repositories

AutoMIL
Public
Automated Machine Learning for Image Classification in Whole-Slide Imaging with Multiple Instance Learning
Python
•
GNU General Public License v3.0
•0•1•0•0•Updated Mar 20, 2026Mar 20, 2026
RCX
Public
R package implementing the Cytoscape Exchange (CX) format
HTML
•
Other
•1•8•1•0•Updated Mar 19, 2026Mar 19, 2026
REDCap_Quesionnaire_Manager
Public
JavaScript
•0•0•0•0•Updated Nov 1, 2025Nov 1, 2025
aucmedi
Public
a framework for Automated Classification of Medical Images
python docker framework
python docker framework research computer-vision deep-learning tensorflow pip image-classification automl
Python
•
GNU General Public License v3.0
•16•43•56•4•Updated Oct 1, 2025Oct 1, 2025
fhir-nursing-dashboard
Public
JavaScript
•0•0•0•0•Updated May 24, 2025May 24, 2025
WikiOntoEntityLinking
Public
Python
•0•0•0•0•Updated Apr 16, 2025Apr 16, 2025
Multipath
Public
Integrating pathways and related knowledge in a multilayer framework
data-visualization graph-theory data-integration
data-visualization graph-theory data-integration reproducibility uniprot knowledge-representation multilayer-networks drugbank-database biopax-encoded-pathways biological-pathways
R
•1•5•0•0•Updated Mar 15, 2025Mar 15, 2025
FHIR-Container-Manager
Public
Python
•1•1•0•0•Updated Mar 10, 2025Mar 10, 2025
MISITcms
Public
Contest Management System
Python
•
GNU Affero General Public License v3.0
•402•0•0•0•Updated Feb 25, 2025Feb 25, 2025
WebIPred
Public
WebIPred is a web-based tool for privacy-focused medical image analysis. It allows users to run deep learning models directly within the browser, enabling secur…
TypeScript
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GNU General Public License v3.0
•0•0•0•0•Updated Nov 13, 2024Nov 13, 2024
miseval
Public
a metric library for Medical Image Segmentation EVALuation
python statistics metrics
python statistics metrics pip segmentation reproducibility medical-image-segmentation evaluaton
Jupyter Notebook
•
GNU General Public License v3.0
•25•121•4•1•Updated Oct 10, 2024Oct 10, 2024
WikiOntoNERCorpus
Public
Synthetic, Annotated NER using WikiData Ontology and Wikipedia Texts, demonstrated for Medical NER
nlp natural-language-processing wiki
nlp natural-language-processing wiki wikipedia wikidata named-entity-recognition ner
Python
•0•1•0•0•Updated Aug 22, 2024Aug 22, 2024
DrNote
Public
DrNote is an open tagging tool for text annotation and entity linking based on OpenTapioca and WIkiData/Wikipedia. It provides an entity linking service with pr…
multilingual nlp text-mining
multilingual nlp text-mining wikipedia wikidata tagging knowledge-graph entity-linking medical-text-mining
Shell
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Apache License 2.0
•0•5•0•0•Updated Aug 2, 2024Aug 2, 2024
DeepGleason
Public
a System for Automated Gleason Grading of Prostate Cancer using Deep Neural Networks
Python
•
GNU General Public License v3.0
•6•12•1•0•Updated Jul 4, 2024Jul 4, 2024
Glioblastoma-Survival-Prognosis-via-Image-Classification
Public
Python
•
GNU General Public License v3.0
•0•3•0•0•Updated Jun 25, 2024Jun 25, 2024
PACS2go
Public
Towards a Portable Research PACS for Interdisciplinary Collaboration
Python
•
GNU General Public License v3.0
•0•6•0•0•Updated Jun 1, 2024Jun 1, 2024
RadTA
Public
RADiomics Trend Analysis for CT scans
Python
•
GNU General Public License v3.0
•0•0•0•0•Updated Apr 29, 2024Apr 29, 2024
ConvNeXt-UNet
Public
Jupyter Notebook
•0•0•0•0•Updated Mar 1, 2024Mar 1, 2024
VisAVis
Public
Group-wise, Comparative and Sharable Subnetwork Visualization
TypeScript
•
GNU General Public License v3.0
•0•0•0•0•Updated Nov 2, 2023Nov 2, 2023
KIMCare
Public
A toolset to transfer files via the KIM component of the German Telematik-Infrastruktur using Apache NiFi.
nifi apache-nifi nifi-processors
nifi apache-nifi nifi-processors kim nifi-processor gematik telematikinfrastruktur
Java
•0•0•0•0•Updated Oct 29, 2023Oct 29, 2023
GERNERMED-pp
Public
GERNERMED++ is a transfer-learning-based open neural NER model for medical entities designed for German data.
nlp natural-language-processing information-extraction
nlp natural-language-processing information-extraction spacy named-entity-recognition clinical-notes ner nlp-machine-learning slot-filling medical-informatics
Python
•3•10•0•0•Updated Oct 20, 2023Oct 20, 2023
GERNERMED
Public
GERNERMED is the first open neural NER model for medical entities designed for German data.
nlp natural-language-processing information-extraction
nlp natural-language-processing information-extraction spacy named-entity-recognition clinical-notes ner nlp-machine-learning medical-informatics
Python
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MIT License
•6•18•0•0•Updated Oct 20, 2023Oct 20, 2023
GPTNERMED
Public
GPTNERMED is a language model-generated, synthetic dataset and an open neural NER model for medical entities designed for German data.
nlp natural-language-processing german
nlp natural-language-processing german information-extraction spacy dataset transformer named-entity-recognition gpt clinical-notes
Python
•1•15•0•0•Updated Oct 5, 2023Oct 5, 2023
FAIR-aligned-ETL-pipeline-solution
Public
Automated ETL pipeline for clinical study data
Java
•0•0•0•0•Updated Sep 27, 2023Sep 27, 2023
FHIR-QR-Explorer
Public
Client-based web application prototype for interactive FHIR Questionnaire Response (QR) analysis and visualization.
react fhir amia
react fhir amia fhir-questionnaire
JavaScript
•0•0•0•0•Updated Aug 27, 2023Aug 27, 2023
Multipath2Neo4j
Public
R
•0•2•22•0•Updated Jul 13, 2023Jul 13, 2023
RCX-Extension-Hub
Public
HTML
•
GNU General Public License v3.0
•0•0•0•0•Updated May 24, 2023May 24, 2023
MIScnn
Public
A framework for Medical Image Segmentation with Convolutional Neural Networks and Deep Learning
framework computer-vision deep-learning
framework computer-vision deep-learning neural-network tensorflow medical-imaging pip segmentation convolutional-neural-networks medical-image-processing
Python
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GNU General Public License v3.0
•118•421•55•4•Updated May 10, 2023May 10, 2023
covid19.MIScnn
Public
Robust Chest CT Image Segmentation of COVID-19 Lung Infection based on limited data
computer-vision deep-learning tensorflow
computer-vision deep-learning tensorflow medical-imaging segmentation medical-image-processing infection lung-segmentation u-net medical-image-analysis
Python
•
GNU General Public License v3.0
•32•93•6•2•Updated Mar 25, 2023Mar 25, 2023
ndexr
Public
R client library for NDEx
R
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BSD 3-Clause "New" or "Revised" License
•1•9•0•0•Updated Mar 23, 2023Mar 23, 2023

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