Mercurial > repos > jjohnson > cummerbund
comparison README @ 15:2d7eee38ab5b
Update to new cuffdiff wrapper, add cuffdb_info.txt to cummerbund html output
author | Jim Johnson <jj@umn.edu> |
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date | Fri, 08 Nov 2013 13:28:44 -0600 |
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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/ ) | |
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5 Prerequisites for installing cumme=Rbund: | |
6 The linux package: libxml2-dev | |
7 In ubuntu: sudo apt-get install libxml2-dev | |
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9 R package: ggplot2 | |
10 install.packages("ggplot2",dependencies = TRUE) | |
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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. | |
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