CytoPix is a graphical user interface for manually segmenting deformability cytometry (DC) images. The mask data (labeled images) can be used for training machine-learning based segmentation algorithms and are also generally useful for benchmarking segmentation algorithms.
Documentation
The documentation is available at cytopix.readthedocs.io.
Installation
Installers for Windows and macOS are available at the release page.
If you have Python installed, you can install CytoPix from PyPI
# graphical user interface pip install cytopix
Execution
If you have installed CytoPix from PyPI, you can start it with
cytopix # or python -m cytopix
Citing CytoPix
Please cite CytoPix either in-line
(...) using the pixel-based segmentation software CytoPix version X.X.X (available at https://github.com/DC-analysis/CytoPix).
or in a bibliography
Paul Müller and others (2025), CytoPix version X.X.X: Pixel-based manual segmentation of deformability cytometry images [Software]. Available at https://github.com/DC-analysis/CytoPix.
and replace X.X.X with the version of CytoPix that you used.
Testing
pip install -e . pip install -r tests/requirements.txt pytest tests
2 maintainers
Metadata
2 maintainers
Release files for cytopix 0.2.2
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| cytopix-0.2.2.tar.gz | 551.6 kB | Details |
Built distribution (wheel)
| File | Interpreter | ABI | Platform | Reset |
|---|---|---|---|---|
| cytopix-0.2.2-py3-none-any.whl | Python 3 | none | any | Details |
Total release size: 585.4 kB
Release files / cytopix-0.2.2.tar.gz
| Download URL | cytopix-0.2.2.tar.gz |
|---|---|
| Size | 551.6 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
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No |
| Uploaded via |
twine/6.2.0 CPython/3.12.3
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Release files / cytopix-0.2.2-py3-none-any.whl
| Download URL | cytopix-0.2.2-py3-none-any.whl |
|---|---|
| Size | 33.8 kB |
| Tags | Python 3 |
|
SHA-256 checksum How to use checksums |
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Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/6.2.0 CPython/3.12.3
|
