All software
hCoCena - horizontal integration and analysis of transcriptomics datasets
hCoCena is an R-package that allows you to comprehensively and easily analyse your transcriptomics data. It also provides the option to integrate several datasets using a network-based integration approach and analyse them jointly. Tutorials and a Docker image exist to help you get to know the tool.
- Data analysis
- Gene Expression
- Health
- + 1
- R
Prospective Monitoring and Management - App (PIA)
PIA is a free open-source eResearch System for monitoring of incident events and provides a digital infrastructure for conducting population-based studies in any research field - at a study centre or at home. PIA focuses on repeated surveys. #DigitalEpidemiology #LongitudinalDataCollection #FOSS
- Data Collection
- Digital Infrastructure
- epidemiology
- + 5
- TypeScript
- HTML
- JavaScript
- + 11
CIMPredict
CIMPredict delivers an alternative to the FRAX fracture risk calculator for osteoporosis patients based on a new Calcium isotope marker in blood.
- Blue Health Tech
- Data analysis
- Health
- + 2
- Python
- R
Herbie - The Semantic ELN
Herbie is a semantic ELN developed at Hereon. Its open technology supports arbitrary scientific fields and enables structured, machine‑readable, FAIR documentation. It generates intuitive forms, semantically annotates all entries, and builds a knowledge graph for complex queries.
- Aeronautics, Space and Transport
- data managment
- Earth & Environment
- + 10
- Elm
- Python
- JavaScript
- + 2
pyMarAI
Neural network model and PyQt5-based user interface for image segmentation of microscopic tumor spheroids. Usable with nnU-Net deep-learning framework. Trained on microscopic images of mouse pheochromocytoma (MPC) cells. Provides pipelines for handling data, running delineation, curating results...
- Artifical Intelligence
- cancer
- Convolutional Neural Networks
- + 6
- Python
PyPlaque
PyPlaque is an open-source Python package for automated analysis of virus plaque assays. It quantifies plaque morphology, size, and intensity from plate images, integrates with Python data tools, and enables reproducible, customizable workflows for high-throughput infection biology studies.
- Health
- Image processing
- Omics
- + 1
- Jupyter Notebook
- Python
scPower
scPower is a statistical framework for design and power analysis of multi-sample single cell transcriptomics experiments. It enables users to identify the optimal experimental parameters for cell type specific inter-individual DE and eQTL analysis using single cell RNA-seq data given a fixed budget.
- Experimental design
- Health
- scRNA-seq
- + 1
- R
- HTML
- CSS
VoxTell
VoxTell is a vision–language model for text-driven 3D medical image segmentation, enabling analysis of anatomical structures and pathologies across CT, MRI, and PET, including open-set and clinically described targets beyond predefined label sets.
- Health
- Image processing
- Machine learning
- + 2
- Python