CytoDataFrame

v0.1.1

An in-memory data analysis format for single-cell profiles alongside their corresponding images and segmentation masks. For more information about how to use this package see README

Latest version published 21 days ago

License: BSD-3-Clause

PyPI

GitHub

Package Health Score

72 / 100

security
No known security issues
popularity
Limited
maintenance
Healthy
community
Sustainable

Popularity

Limited

GitHub Stars: 7
Forks: 2
Contributors: -

Direct Usage Popularity

Based on project statistics from the GitHub repository for the PyPI package CytoDataFrame, we found that it has been starred 7 times.

Security

No known security issues

Security and license risk for latest version

Release Date: Nov 24, 2025
Direct Vulnerabilities: 0
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0
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0
M
0
L
Indirect Vulnerabilities: 0
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0
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0
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0
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License Risk: 0
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0
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All security vulnerabilities belong to production dependencies of direct and indirect packages.

License

BSD-3-Clause

Security Policy

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Maintenance

Healthy

Commit Frequency

Open Issues: 23
Open PR: 0
Last Release: 21 days ago
Last Commit: 7 days ago

Further analysis of the maintenance status of CytoDataFrame based on released PyPI versions cadence, the repository activity, and other data points determined that its maintenance is Healthy.

We found that CytoDataFrame demonstrates a positive version release cadence with at least one new version released in the past 3 months.

As a healthy sign for on-going project maintenance, we found that the GitHub repository had at least 1 pull request or issue interacted with by the community.

Community

Sustainable

Readme: Yes
Contributing.md: Yes
Code of Conduct: Yes
Contributors: 0
Funding: No

This project has seen only 10 or less contributors.

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Package

Python Versions Compatibility: <3.14,>=3.11

Age: 1 year
Latest Release: 21 days ago
Dependencies: 0 Direct
Versions: 21
Maintainers: 0
Wheels: OS Independent

Readme

CytoDataFrame

CytoDataFrame extends Pandas functionality to help display single-cell profile data alongside related images.

CytoDataFrame is an advanced in-memory data analysis format designed for single-cell profiling, integrating not only the data profiles but also their corresponding microscopy images and segmentation masks. Traditional single-cell profiling often excludes the associated images from analysis, limiting the scope of research. CytoDataFrame bridges this gap, offering a purpose-built solution for comprehensive analysis that incorporates both the data and images, empowering more detailed and visual insights in single-cell research.

CytoDataFrame is best suited for work within Jupyter notebooks. With CytoDataFrame you can:

View image objects alongside their feature data using a Pandas DataFrame-like interface.
Highlight image objects using mask or outline files to understand their segmentation.
Adjust image displays on-the-fly using interactive slider widgets.

📓 Want to see CytoDataFrame in action? Check out our example notebook for a quick tour of its key features.

> ✨ CytoDataFrame development began within coSMicQC - a single-cell profile quality control package. > Please check out our work there as well!

Installation

Install CytoDataFrame from source using the following:

# install from pypi
pip install cytodataframe

# or install directly from source
pip install git+https://github.com/cytomining/CytoDataFrame.git

Contributing, Development, and Testing

Please see our contributing documentation for more details on contributions, development, and testing.

References

FAQs

What is CytoDataFrame?

An in-memory data analysis format for single-cell profiles alongside their corresponding images and segmentation masks. Visit Snyk Advisor to see a full health score report for CytoDataFrame, including popularity, security, maintenance & community analysis.

Is CytoDataFrame popular?

We’re still processing downloads data for the python package CytoDataFrame. Visit the popularity section on Snyk Advisor to see the full popularity analysis.

Is CytoDataFrame well maintained?

We found that CytoDataFrame demonstrated a healthy version release cadence and project activity. It has a community of 0 open source contributors collaborating on the project. See the full package health analysis to learn more about the package maintenance status.

Is CytoDataFrame safe to use?

The python package CytoDataFrame was scanned for known vulnerabilities and missing license, and no issues were found. Thus the package was deemed as safe to use. See the full health analysis review.

Last updated on 14 December-2025, at 00:38 (UTC).

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Readme

CytoDataFrame

Installation

Contributing, Development, and Testing

References

FAQs

What is CytoDataFrame?

Is CytoDataFrame popular?

Is CytoDataFrame well maintained?

Is CytoDataFrame safe to use?

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Source Code

Open Source

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