RCellminer

This R package provide access to the data and functions to analyze data from CellMiner.

Installation

Install from GitHub

setRepositories(ind=1:6)
options(repos="http://cran.rstudio.com/")

if (!require("devtools")) install.packages("devtools")

if (!requireNamespace("BiocManager", quietly=TRUE))
    install.packages("BiocManager")

if (!require("Biobase")) {
    BiocManager::install()
}

BiocManager::install("BiocStyle")

library(devtools)

# Optional for interactive plots
install_github('rCharts', 'ramnathv')

install_github("cannin/rcellminer",
                  build_vignette=FALSE,
                  dependencies=TRUE,
                  args="--no-multiarch",
                  ref="master")

install_github("github/rcellminerData",
                  build_vignette=FALSE,
                  dependencies=TRUE,
                  args="--no-multiarch",
                  ref="master")

Install from local

Open Project

Open .Rproj file in RStudio

Install Dependencies

if (require("devtools")) install.packages("devtools")

setRepositories(ind=1:6)
library(devtools)

install_deps(".")

Run Vignette

Open vignette (Rmd files) from vignettes/ folder and use “Knit HTML” button to generate the HTML file.