README.md

In alorchhota/rpkg: Install required R packages

rpkg

Installing required packages to prepare the R working environment is always painful. To reduce future pain, I created this R package rkpg. Installing rpkg should install R packages I commonly use.

This package would be useful for me (and other bioinformaticians / computational biologists) whenever I start working on a new cluster or I reinstall the operating system.

How to install

Install default packages:

if (!requireNamespace("devtools", quietly = TRUE))
    install.packages("devtools")
devtools::install_github("alorchhota/rpkg")

Install additional packages:

cran.pkg = c("shiny")
bioconductor.pkg = c("scater", "scran")
github.pkg = c("alorchhota/spice")
rpkg::install.rpkg(cran.pkg, bioconductor.pkg, github.pkg)

Default packages

CRAN packages 1. argparser 1. blogdown 1. corpcor 1. corrplot 1. cowplot 1. data.table 1. doParallel 1. dplyr 1. feather 1. flock 1. foreach 1. ggplot2 1. glasso 1. gridExtra 1. igraph 1. infotheo 1. lme4 1. MASS 1. MatrixEQTL 1. ppcor 1. PRROC 1. RColorBrewer 1. Rcpp 1. Rdpack 1. reshape2 1. Seurat 1. stringr 1. svd 1. tidyr

Bioconductor packages 1. biomaRt 1. Biostrings 1. DESeq2 1. edgeR 1. GENIE3 1. GenomicRanges 1. IRanges 1. KEGGgraph 1. limma 1. minet 1. SharedObject 1. STRINGdb 1. sva 1. WGCNA

GitHub packages 1. alorchhota/autil/genomicsutil 1. alorchhota/autil/ioutil 1. alorchhota/autil/mappabilityutil 1. alorchhota/autil/miscutil

alorchhota/rpkg documentation built on Feb. 9, 2021, 8:33 a.m.