adding pkgs

liaoj · Apr 20, 2015 · 4b47847 · 4b47847
1 parent d4de993
commit 4b47847
Showing 1 changed file with 24 additions and 0 deletions.
diff --git a/course5/rnaseq_pkgs.R b/course5/rnaseq_pkgs.R
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+# 2 CRAN packages
+cranpkgs <- c("ggplot2","pheatmap")
+install.packages(cranpkgs)
+
+# rafalib from github (not strictly necessary, but useful)
+install.packages("devtools")
+library(devtools)
+install_github("ririzarr/rafalib")
+
+# the rest are Bioconductor packages
+biocpkgs <- c("Rsamtools",
+              "GenomicFeatures",
+              "GenomicAlignments",
+              "Rsubread",
+              "airway",
+              "pasilla",
+              "DESeq2",
+              "DEXSeq",
+              "vsn",
+              "org.Hs.eg.db",
+              "cummeRbund")
+source("http://bioconductor.org/biocLite.R")
+biocLite(biocpkgs)
+