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Flow Cytometry Standard Utilities

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FlowUtils is a Python package containing various utility functions related to flow cytometry analysis, primarily focused on compensation, transformation, and gating tasks commonly used within the flow community.

FlowUtils is part of a suite of Python libraries for analyzing flow cytometry data. It was developed as an extension to the light-weight FlowIO library. FlowIO reads and writes Flow Cytometry Standard (FCS) files, and has zero dependencies. For higher level interaction with flow cytometry data, including GatingML & FlowJo 10 support, see the related FlowKit project.


Note: FlowUtils uses C extensions for significant performance improvements. For the most common platforms and Python versions, pre-built binaries are available in PyPI (and installable via pip).

If a pre-built binary of FlowUtils is not available for your environment, then the C extensions must be compiled using the source package. NumPy must be installed prior to compiling FlowUtils. If compiling using gcc, version 5 or later is required.

Compiling FlowUtils from source can also result in NumPy C API incompatibilities. See the NumPy docs for more information.

From PyPI

pip install flowutils

From GitHub source code

pip install numpy>=1.20

git clone
cd flowutils

python install

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