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+ − 1 CummeRbund is an R package that is designed to aid and simplify the task of analyzing Cufflinks RNA-Seq output.
+ − 2 ( http://compbio.mit.edu/cummeRbund/ )
+ − 3
+ − 4
+ − 5 Prerequisites for installing cumme=Rbund:
+ − 6 The linux package: libxml2-dev
+ − 7 In ubuntu: sudo apt-get install libxml2-dev
+ − 8
+ − 9 R package: ggplot2
+ − 10 install.packages("ggplot2",dependencies = TRUE)
+ − 11
+ − 12 To install cummeRbund on your R server, follow the directions in:
+ − 13 ( http://www.bioconductor.org/packages/release/bioc/html/cummeRbund.html )
+ − 14 source("http://bioconductor.org/biocLite.R")
+ − 15 biocLite("cummeRbund")
+ − 16
+ − 17 This galaxy tool package includes a replacement variation of the cuffdiff wrapper that will generate an output that can be used directly in cummeRbund.
+ − 18
+ − 19
+ − 20