9.3 R Bioinformatics Toolkit
The full list of R packages that I’ve installed:
acepack affy affyio annotate AnnotationDbi AnnotationFilter
apeglm askpass assertthat backports base base64enc
bbmle beeswarm BH Biobase BiocFileCache BiocGenerics
BiocManager BiocParallel BiocVersion biomaRt Biostrings bit
bit64 bitops blob boot broom callr
cellranger checkmate circlize class cli clipr
clue cluster clusterProfiler coda codetools colorspace
compiler ComplexHeatmap cowplot crayon curl data.table
datasets DBI dbplyr DelayedArray DESeq2 digest
DO.db DOSE dplyr edgeR ellipsis emdbook
enrichplot ensembldb europepmc evaluate fansi farver
fastmap fastmatch fgsea forcats foreign formatR
Formula fs futile.logger futile.options genefilter geneplotter
generics GenomeInfoDb GenomeInfoDbData GenomicAlignments GenomicFeatures GenomicRanges
GEOquery GetoptLong ggforce ggplot2 ggplotify ggraph
ggrepel ggridges GlobalOptions glue GO.db GOSemSim
graph graphics graphlayouts grDevices grid gridExtra
gridGraphics gtable haven hexbin highr Hmisc
hms htmlTable htmltools htmlwidgets httpuv httr
hwriter igraph impute IRanges JctSeqData jsonlite
JunctionSeq KernSmooth knitr labeling lambda.r later
lattice latticeExtra lazyeval lifecycle limma locfit
lubridate magrittr markdown MASS Matrix matrixStats
memoise methods mgcv mime modelr multtest
munsell nlme nnet numDeriv openssl parallel
pasilla pheatmap pillar pkgconfig plogr plotrix
plyr png polyclip preprocessCore prettyunits processx
progress promises ProtGenerics ps purrr QoRTs
QoRTsExampleData qvalue R6 rappdirs RColorBrewer Rcpp
RcppArmadillo RcppEigen RcppNumerical RCurl readr readxl
rematch reprex reshape2 Rgraphviz Rhtslib rjson
rlang rmarkdown rpart Rsamtools RSQLite rstudioapi
rtracklayer rvcheck rvest S4Vectors scales selectr
shape shiny ShortRead snow sourcetools spatial
splines statmod stats stats4 stringi stringr
SummarizedExperiment survival sys tcltk tibble tidygraph
tidyr tidyselect tidyverse tinytex tools triebeard
tweenr tximport UpSetR urltools utf8 utils
vctrs viridis viridisLite vsn whisker withr
xfun XML xml2 xtable XVector yaml
zeallot zlibbioc zoo