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@gwaybio
gwaybio committed Jun 14, 2023
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Pycytominer is a suite of common functions used to process high dimensional readouts from high-throughput cell experiments.
The tool is most often used for processing data through the following pipeline:

<img height="500" src="https://github.com/cytomining/pycytominer/blob/master/media/pipeline.png?raw=true">
[Click here for high resolution image](https://github.com/cytomining/pycytominer/blob/master/media/pipeline.png)
<img height="325" src="https://github.com/cytomining/pycytominer/blob/master/media/pipeline.png?raw=true">

[Click here for high resolution pipeline image](https://github.com/cytomining/pycytominer/blob/master/media/pipeline.png)

Image data flow from a microscope to cell segmentation and feature extraction tools (e.g. CellProfiler or DeepProfiler).
From here, additional single cell processing tools curate the single cell readouts into a form manageable for pycytominer input.
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