Does this skill handle data scaling and transformations?

Yes, FlowIO automatically applies gain scaling and logarithmic transformations based on the FCS file metadata by default, though raw data can still be accessed if needed.

Does it support files with multiple datasets?

Yes, FlowIO includes a 'read_multiple_data_sets' utility specifically designed to handle and iterate through FCS files containing more than one dataset.

Which FCS versions are supported by this skill?

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

Can I convert FCS files to CSV or Pandas DataFrames?

Yes, you can extract event data as NumPy arrays using flow_data.as_array() and then use standard Python tools like Pandas to save them as CSV or work with them as DataFrames.

Flow Cytometry Data Handler (FlowIO)

Name: Flow Cytometry Data Handler (FlowIO)
Author: Yezez9

byYezez9

0•

数据科学与机器学习

Parses, manipulates, and converts Flow Cytometry Standard (FCS) files for scientific data processing and analysis.

FlowIO is a specialized capability for handling Flow Cytometry Standard (FCS) files version 2.0 through 3.1. It provides a lightweight Python interface to extract event data as NumPy arrays, access rich metadata from the TEXT segment, and generate new FCS files from scratch. Ideal for bioinformatics pipelines and preprocessing workflows, this skill enables seamless integration of cytometry data with modern data science tools like Pandas and Scikit-learn, supporting advanced operations like gain scaling, log transformations, and handling multi-dataset files.

主要功能

01Parse FCS versions 2.0, 3.0, and 3.1

02Comprehensive metadata extraction from TEXT and ANALYSIS segments

03Memory-efficient metadata-only reading mode

04Create and export new FCS files from custom data

05Extract event data directly into NumPy arrays

060 GitHub stars

使用场景

01Converting FCS data to CSV or Pandas DataFrames for analysis

02Preprocessing raw cytometry data for machine learning models

03Automated batch metadata extraction from large-scale experiments

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add yezez9/research-agent flowio

For use in Claude.ai and ChatGPT