cylinter


Namecylinter JSON
Version 0.0.21 PyPI version JSON
download
home_pagehttps://github.com/labsyspharm/cylinter
SummaryCyLinter
upload_time2021-03-26 16:48:18
maintainer
docs_urlNone
authorGregory J. Baker
requires_python==3.8.5
licenseMIT License
keywords scripts single cell data science
VCS
bugtrack_url
requirements No requirements were recorded.
Travis-CI No Travis.
coveralls test coverage No coveralls.
            ![alt text](https://github.com/labsyspharm/cylinter/blob/master/docs/logo3.png?raw=true)

## An Interactive Image Segmentation Filter for Multiplex Microscopy.

CyLinter cleans image-derived, single-cell data by identifying and removing cell segmentation instances in multiplexed whole tissue and tissue microarray images corrupted by optical and/or image preprocessing artifacts. The tool comprises a set of user-guided, quality control (QC) modules instantiated in a configurable [Python](https://www.python.org) Class. The results of each module are cached to allow for dynamic restarts and iterative QC strategies.

CyLinter development is led by [Greg Baker](https://github.com/gjbaker) at [Laboratory of Systems Pharmacology](https://hits.harvard.edu/the-program/laboratory-of-systems-pharmacology/about/), Harvard Medical School.

**Funding:** This work is supported by the following:

* *NIH grant U54CA225088: Systems Pharmacology of Therapeutic and Adverse Responses to Immune Checkpoint and Small Molecule Drugs*
* Ludwig Center at Harvard Medical School and the Ludwig Cancer Research Foundation

**Instructions:** https://labsyspharm.github.io/cylinter/



            

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