/TSNEVizTool

Primary LanguageR

TSNEVizTool

Benchmark tool used to visualize the results of different runs of the Rtsne function on a generated FCS file. This tool is meant to help the user choose parameters for the t-SNE depending on his goal.

Requirements

  • software: R(Version 3.4.3 to 3.5), Rstudio(optional)
  • R packages: shiny, shinydashboard, ggcyto, flowCore, gtools, Biobase

Quick installation guide

  1. Run the following command in R/RStudio:
install.packages(c("shiny", "shinydashboard", "gtools", "devtools"))
source("https://bioconductor.org/biocLite.R")
biocLite("Biobase", "flowCore", "ggcyto")

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

  1. Run the next commands:
library("devtools")
install_github("isambens/tsneviztool")

Launching the shiny application

  1. Run the following commands in R/RStudio:
library("TSNEVizTool")
TSNE.Viz.run()