Which FCS versions are supported by this skill?

FlowIO supports Flow Cytometry Standard (FCS) versions 2.0, 3.0, and 3.1.

Can I convert FCS files to CSV using FlowIO?

Yes, FlowIO can extract event data as NumPy arrays, which can then be easily converted to a Pandas DataFrame and exported as a CSV file.

Does FlowIO apply data transformations like log scaling?

Yes, when preprocessing is enabled, FlowIO automatically applies gain scaling and logarithmic transformations based on the PnE and PnG keywords in the file.

How does this skill handle files with multiple datasets?

The skill includes specialized functions like read_multiple_data_sets to detect and process FCS files containing more than one data segment.

Is this skill suitable for advanced gating analysis?

FlowIO is primarily for file reading and writing. For advanced analysis like gating or compensation, it is best used as a data provider for libraries like FlowKit.

FlowIO FCS Handler

Name: FlowIO FCS Handler
Author: BbgnsurfTech

byBbgnsurfTech

•

Ciencia de Datos y ML

Parses and manages Flow Cytometry Standard (FCS) files to extract event data, metadata, and convert datasets for scientific analysis.

FlowIO is a specialized Python utility designed for seamless interaction with Flow Cytometry Standard (FCS) files across versions 2.0 through 3.1. This skill enables researchers and developers to extract event data directly into NumPy arrays, parse complex TEXT segment metadata, and generate new FCS files from scratch. It is particularly useful for bioinformatics pipelines, allowing for the conversion of raw cytometry data into analysis-ready formats like Pandas DataFrames while handling specialized tasks such as gain scaling, logarithmic transformations, and multi-dataset file management.

Características Principales

01Comprehensive support for FCS versions 2.0, 3.0, and 3.1

023 GitHub stars

03Full parsing of metadata keywords and channel information

04Robust error handling for offset discrepancies and multi-dataset files

05Direct extraction of event data into NumPy arrays for data science

06Creation of new FCS files from synthetic or modified data

Casos de Uso

01Converting raw flow cytometry data to CSV or Pandas for machine learning models

02Preprocessing and filtering event data before advanced gating analysis

03Automating batch metadata extraction and file validation in scientific pipelines

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add bbgnsurftech/claude-skills-collection flowio

For use in Claude.ai and ChatGPT

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