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FlowIO

Maintainer K-Dense Inc. · Last updated March 31, 2026

FlowIO is a lightweight Python library for reading and writing Flow Cytometry Standard (FCS) files. Parse FCS metadata, extract event data, and create new FCS files with minimal dependencies. The library supports FCS versions 2.0, 3.0, and 3.1, making it ideal for backend services, data pipelines, and basic cytometry file operations.

Claude CodeOpenClawNanoClawWritingSubmissionflowiogenomics-toolspackagegenomics tools

Original source

K-Dense-AI/claude-scientific-skills

https://github.com/K-Dense-AI/claude-scientific-skills/tree/main/scientific-skills/flowio

Maintainer: K-Dense Inc.
License: BSD-3-Clause license
Last updated: March 31, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

FlowIO is a lightweight Python library for reading and writing Flow Cytometry Standard (FCS) files. Parse FCS metadata, extract event data, and create new FCS files with minimal dependencies. The library supports FCS versions 2.0, 3.0, and 3.1, making it ideal for backend services, data pipelines, and basic cytometry file operations.
flow_data = FlowData('experiment.fcs').

Source Doc

Excerpt From SKILL.md

When to Use This Skill

This skill should be used when:

FCS files requiring parsing or metadata extraction
Flow cytometry data needing conversion to NumPy arrays
Event data requiring export to FCS format
Multi-dataset FCS files needing separation
Channel information extraction (scatter, fluorescence, time)
Cytometry file validation or inspection
Pre-processing workflows before advanced analysis

Related Tools: For advanced flow cytometry analysis including compensation, gating, and FlowJo/GatingML support, recommend FlowKit library as a companion to FlowIO.

Basic File Reading

from flowio import FlowData

## Access basic information

print(f"FCS Version: {flow_data.version}")
print(f"Events: {flow_data.event_count}")
print(f"Channels: {flow_data.pnn_labels}")

Use cases

FCS files requiring parsing or metadata extraction.
Flow cytometry data needing conversion to NumPy arrays.
Event data requiring export to FCS format.
Multi-dataset FCS files needing separation.

Not for

Do not treat this catalog entry as a substitute for the full upstream workflow.
Do not rely on this catalog entry alone for installation or maintenance details.

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