ciphelab/flowvsparallel

Running flowVS but parallelly

flowVSParallel

flowVSParallel is a modified version of the flowVS package, designed to perform variance stabilizing transformations on flow cytometry data. The key difference is that flowVSParallel is designed to run in parallel, which can significantly speed up computations for large datasets or many channels.

Installation

To install flowVSParallel, you can use the devtools package in R. If you don't have devtools installed, you can install it with:

install.packages("devtools")
devtools::install_github("GeorgeAlehandro/flowVSParallel")

Usage

After installing flowVSParallel, you can load it in your R script with:

library(flowVSParallel)

You can then use the estParamFlowVSParallel function to estimate the optimum parameters for variance stabilization in your flow cytometry data. See the documentation for estParamFlowVS for more information.

ParallelFlowVS Shiny App

A Shiny app for ParallelFlowVS, hosted in a Docker container for easy deployment and use.

Getting Started

To get started, you'll need to have Docker installed on your machine.

Pulling the Docker Image

First, pull the latest version of the Docker image from Docker Hub by running the following command in your terminal:

docker pull georgealehandro/parallelflowvs_shiny:latest

Launching the APP

Once you have pulled the Docker image, you can launch the Shiny app by running the following command:

docker run -d -p 7777:3838 georgealehandro/parallelflowvs_shiny:latest

Now, you should be able to access the Shiny app by navigating to http://localhost:7777 in your web browser.

(You can replace 7777 with any other available port number on your machine if needed.)

Credits

All credits to the creator of the original package Ariful Azad and the original paper.