In vguillemot/ReMUSE: The package for the e-MUSE R course

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  collapse = TRUE,
  comment = "#>",
  echo = TRUE
)

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Install packages from {.smaller}

• Bioconductor ?
  1. First install BiocManager from CRAN
  2. Run the R command BiocManager::install("package_name")
• GitHub ?
  1. Install devtools
  2. Run the R command devtools::install_github("username/repository").
• Source code ?
  1. Put the source.tar.gz in your working directory...
  2. Run the R command install.package("source.tar.gz", repos = NULL, type = "source").

Exercises

Install limma

limma is the favorite package of anyone that wants to analyze gene expression data (microarray, RNA-seq, NanoString etc.)

Install it with the command:

BiocManager::install("limma")

Explore the package

1. Load : library(limma)
2. Look at the main help page

?`limma-package`

1. Look at the first vignette : vignette("intro", package = "limma")

Install the "ReMUSE" course's package

The course's material is in fact an R package. Install it from GitHub with the command:

devtools::install_github("vguillemot/ReMUSE")

vguillemot/ReMUSE documentation built on Dec. 23, 2021, 3:09 p.m.