A Python toolkit for flow cytometry analysis supporting GatingML and FlowJo workspaces

A computational toolkit in R for the integration, exploration, and analysis of high-dimensional single-cell cytometry and imaging data.

A Python library for reading and writing Flow Cytometry Standard (FCS) files

R package for pre-processing of mass and flow cytometry data

R scripts to reproduce analyses in our paper comparing clustering methods for high-dimensional cytometry data

A data-centric flow/mass cytometry automated analysis framework

Huge-scale, high-performance flow cytometry clustering in Julia

Framework for image and flow cytometry analysis

Immunology Informatics - Big Data Analysis in Immunology - Tutorials

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

Javascript / node.js code to read FCS flow cytometry data

🧫 Read Flow Cytometry Standard (FCS) files in Julia

An R package for the processing of plate reader and flow cytometry data. This includes: normalisation and calibration of plate reader data, and removing debris and doublets and calibration of flow cytometry data.

CITEViz: Replicating the Interactive Flow Cytometry Workflow in CITE-Seq

R package for analysis of single-cell data using graphs

This repository extends scanpy to handle flow and mass cytometry data.

R package for interactive visualization and analysis of single-cell data

Official implementation of GateNet

Python package for FlowCytometry simulation and development toolbox.

Popcycle is an R package that offers reproducible analytical tools to analyze flow cytometry data collected by SeaFlow

R package to cluster single-cell data and generate features that can be used for model building

Shiny Modules for visualizing flow cytometry data

Code base for the Grant, Morales-Nebreda, and Markov et al., “Circuits between infected macrophages and T cells in SARS-CoV-2 pneumonia” Nature (2021) paper

Tools for Imaging Flow Cytometry

Python package with library and CLI tool for analyzing SeaFlow data

An R Interactive Shiny Application for the Analysis of Imaging and Conventional Flow Cytometry

An R package for flow cytometry histogram analysis

R package offering functionality for the advanced analysis of microbial flow cytometry data

Low-level Flow Cytometry Standard (FCS) file serializer/deserializer

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