README.md

In IsamBenS/FCSGenerator2: FCS Generator 2

FCSGenerator2

Shiny App meant to generate "ground truth" FCS files for benchmarking dimension reduction and clustering algorithms. FCSGenerator allows creating highly customizable FCS files from scratch or by use of clustered cytometry data.

Requirements

• software: R(Version 3.5.1), Rstudio(optional)
• R packages: shiny, shinydashboard, shinyjs, flowCore, ggplot2, d3r, reshape2, ggridges, truncnorm, sunburstR, heatmaply, shinyHeatmaply, tcltk

Quick installation guide

1. Run the following command in R/RStudio:

source("https://bioconductor.org/biocLite.R")
biocLite("Biobase")
biocLite("flowCore")
install.packages(c("shiny", "shinyjs", "shinydashboard", "ggplot2", "d3r", "reshape2", "ggridges", "truncnorm", "sunburstR", "heatmaply", "shinyHeatmaply", "tcltk"))

You may be asked to reload your environment, if so, accept.

1. Run the next commands:

library("devtools")
install_github("isambens/fcsgenerator2")

Launching the shiny application

Run the following commands in R/RStudio:

library("FCSGenerator2")
FCSGenerator2.run()

IsamBenS/FCSGenerator2 documentation built on May 3, 2019, 8:34 p.m.