Pytometry is a Python package for flow and mass cytometry analysis.
Project description
Pytometry: Flow & mass cytometry analytics
This package provides efficient and scalable handling of flow and mass cytometry data analysis. It provides
- the functionality to read in flow data in the fcs file format as anndata objects
- flow and mass cytometry specific preprocessing tools
- access to the entire scanpy workflow functionality
- GPU support through rapids
Follow https://twitter.com/marenbuettner for updates.
For the code enthusiasts: Find our code base on Github.
Installation
You can install pytometry
via pip from PyPI:
pip install pytometry
or from GitHub:
pip install git+https://github.com/buettnerlab/pytometry.git
Updates
- May 3rd 2023: New release 0.1.5 with FlowSOM clustering and autologicle normalization.
- August 28th 2023: New release with various fixes and improvements.
- October 12th 2022: First public release announcement on Twitter
Citation
Pytometry is currently a pre-print on bioRxiv.
Project details
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