CABANA (CollAgen FiBre ANAlyzer) is a comprehensive toolkit for analyzing collagen fibre architecture in immunohistochemistry (IHC) and fluorescence microscopy images. It provides:
- Automated detection and quantification of collagen fibres
- Analysis of fibre orientation, length, and thickness
- Gap analysis for inter-fibre and intra-fibre spaces
- Interactive parameter optimization interface
- Batch processing for large datasets
CABANA combines advanced computer vision algorithms with an intuitive user interface, making it accessible to researchers without extensive programming experience while providing detailed quantitative data for comprehensive analysis of collagen architecture.
System Requirements
- Processor (CPU): Intel Core i7, AMD Ryzen 7, or higher recommended
- Memory (RAM): Minimum 16 GB, 32 GB recommended
- GPU: NVIDIA GeForce GTX/RTX series with at least 10 GB VRAM recommended
- Python: 3.8 or newer
Quick Installation
Install CABANA using pip:
pip install -U cabana
or install the latest version on GitHub:
pip install git+https://github.com/lxfhfut/Cabana.git
After installation, you can launch the CABANA GUI by running:
python -m cabana
Alternatively, you can import CABANA in your Python code for customized analysis (see examples in Tutorials):
import cabana
Documentation
Comprehensive documentation is available at: https://cabana.readthedocs.io/en/latest/
Tutorials
We provide an interactive Jupyter notebook tutorial to help you get started: CABANA Tutorial
Citation
If you use CABANA in your research, please cite:
License
CABANA is released under the MIT License.
Contact
For questions and support, please contact:
- Xufeng Lin - x.lin@garvan.org.au
- Astrid Magenau - a.magenau@garvan.org.au
1 maintainer
Metadata
1 maintainer
Release files for cabana 0.1.11
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Source distribution (sdist)
| File | Size | Uploaded | |
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| cabana-0.1.11.tar.gz | 268.8 kB | Details |
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| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| cabana-0.1.11-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 519.4 kB
Release files / cabana-0.1.11.tar.gz
| Download URL | cabana-0.1.11.tar.gz |
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| Size | 268.8 kB |
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| Size | 250.7 kB |
| Tags | Python 3 |
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