https://github.com/acsenrafilho/awesome-biomedical-analysis
A curated open-source collection for biomedical image and signal processing & analysis
https://github.com/acsenrafilho/awesome-biomedical-analysis
List: awesome-biomedical-analysis
biomedical biomedical-data-science biomedical-image-processing biomedical-signal-processing image-processing imaging medicine medicine-applications mri opensource python research science science-research signal-processing tomography ultrasound
Last synced: 3 months ago
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A curated open-source collection for biomedical image and signal processing & analysis
- Host: GitHub
- URL: https://github.com/acsenrafilho/awesome-biomedical-analysis
- Owner: acsenrafilho
- License: gpl-3.0
- Created: 2025-08-07T00:27:50.000Z (4 months ago)
- Default Branch: main
- Last Pushed: 2025-08-07T13:05:58.000Z (4 months ago)
- Last Synced: 2025-09-06T09:43:10.996Z (3 months ago)
- Topics: biomedical, biomedical-data-science, biomedical-image-processing, biomedical-signal-processing, image-processing, imaging, medicine, medicine-applications, mri, opensource, python, research, science, science-research, signal-processing, tomography, ultrasound
- Homepage:
- Size: 21.5 KB
- Stars: 0
- Watchers: 0
- Forks: 0
- Open Issues: 4
-
Metadata Files:
- Readme: README.md
- Contributing: CONTRIBUTING.md
- Funding: .github/FUNDING.yml
- License: LICENSE
Awesome Lists containing this project
README
# 🧬 awesome-biomedical-analysis
**A curated open-source collection for biomedical image and signal processing & analysis**
[](LICENSE)
[](CONTRIBUTING.md)
[](https://www.python.org/)
---
## 📌 Overview
**awesome-biomedical-analysis** is a collaborative, open-source repository that brings together practical tools, code samples, and workflows for biomedical **image** and **signal** analysis.
Our goal is to empower researchers, healthcare professionals, and data scientists by providing:
- 🔬 **Biomedical Image Processing**: MRI, CT, ultrasound, microscopy, and more
- 💡 **Biomedical Signal Analysis**: EEG, ECG, EMG, and biosignals
- ⚙️ **Preprocessing Pipelines**: Denoising, normalization, artifact correction
- 📈 **Feature Extraction & Statistical Analysis**
- 🤖 **Machine Learning and Deep Learning** applications in biomedical data
This repository is designed to be **modular**, **well-documented**, and **easy to contribute to** — helping you get from raw data to results, faster.
---
## 🤝 Contributing
We welcome contributions from everyone!
Whether you want to add new tools, improve documentation, and so on, we’d love your input.
📄 See [CONTRIBUTING.md](CONTRIBUTING.md) for guidelines.
---
## 📬 Contact
For questions, feedback, or collaborations:
📧 acsenrafilho@gmail.com
💬 Or open an [issue](https://github.com/acsenrafilho/awesome-biomedical-analysis/issues)
---
# Full list of frameworks and tools
| Name | Type | Description | Link |
|------|------|-------------|------|
| SimpleITK | Image Processing | Simplified interface to ITK for medical image analysis | [GitHub](https://github.com/SimpleITK/SimpleITK) |
| BioSPPy | Signal Processing | Toolbox for biosignal processing in Python | [GitHub](https://github.com/PIA-Group/BioSPPy) |
| MNE-Python | Signal Analysis | Analysis of EEG, MEG, and other electrophysiological data | [GitHub](https://github.com/mne-tools/mne-python) |
| MONAI | Deep Learning | Medical Open Network for AI, deep learning in healthcare imaging | [GitHub](https://github.com/Project-MONAI/MONAI) |
| PyRadiomics | Feature Extraction | Extraction of radiomics features from medical images | [GitHub](https://github.com/AIM-Harvard/pyradiomics) |
| NeuroKit2 | Signal Processing | User-friendly biosignal processing in Python | [GitHub](https://github.com/neuropsychology/NeuroKit) |
| Dipy | Image Processing | Diffusion MRI analysis in Python | [GitHub](https://github.com/dipy/dipy) |
| NiBabel | Image I/O | Access and analyze neuroimaging file formats | [GitHub](https://github.com/nipy/nibabel) |
| OpenMS | Signal Analysis | Open-source software for mass spectrometry data analysis | [GitHub](https://github.com/OpenMS/OpenMS) |
| scikit-image | Image Processing | Image processing routines for SciPy in Python | [GitHub](https://github.com/scikit-image/scikit-image) |
| ANTsPy | Image Processing | A fast medical imaging analysis library in Python with algorithms for registration, segmentation, and more | [GitHub](https://github.com/ANTsX/ANTsPy) |
| 3D Slicer | Image Processing | Open-source platform for medical image informatics and visualization | [GitHub](https://github.com/Slicer/Slicer) |
| ImageJ (Fiji) | Image Processing | A "batteries-included" distribution of ImageJ 🔋 | [Github](https://github.com/fiji/fiji) |