/
Installing R packages

Installing R packages

Owned by John Calder
Last updated: Oct 05, 2020

CRAN packages you will need installed on your machine:

  • dirmult

  • BiocManager

  • MASS

  • devtools

  • rstan (see the instructions below for installing rstan)

To install these, run:

list.of.packages <- c("dirmult", "BiocManager", "MASS", "devtools") new.packages <- list.of.packages[!(list.of.packages %in% installed.packages()[, "Package"])] if (length(new.packages)) install.packages(new.packages)

Many bioinformatic packages are not on CRAN but can be installed with other tools

DADA2 is only available through BiocManager. To install it run:

BiocManager::install("dada2")

Installing rstan

If you do not have rstan already installed, please see their detailed help page here to install it. Please follow their instructions carefully

RStan Getting Started

Installing Josh's package CNVRG for testing differences in proportions

It’s now on CRAN! Woot! Woot, Josh!

install.packages("CNVRG")

Related content