Mercurial > repos > jjohnson > cummerbund
diff README @ 6:137aab1d9ac1
Add metadata to datatype: CuffDataDB
| author | Jim Johnson <jj@umn.edu> |
|---|---|
| date | Mon, 18 Nov 2013 16:43:15 -0600 |
| parents | f109453ecfa2 |
| children |
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--- a/README Fri Nov 15 14:13:14 2013 -0600 +++ b/README Mon Nov 18 16:43:15 2013 -0600 @@ -1,8 +1,9 @@ CummeRbund is an R package that is designed to aid and simplify the task of analyzing Cufflinks RNA-Seq output. ( http://compbio.mit.edu/cummeRbund/ ) +( http://www.bioconductor.org/packages/release/bioc/html/cummeRbund.html ) -Prerequisites for installing cumme=Rbund: +Prerequisites for installing cummeRbund: The linux package: libxml2-dev In ubuntu: sudo apt-get install libxml2-dev @@ -14,9 +15,8 @@ source("http://bioconductor.org/biocLite.R") biocLite("cummeRbund") -This galaxy tool package includes a replacement variation of the cuffdiff wrapper that will generate an output that can be used directly in cummeRbund. +This galaxy tool package includes a replacement variation of the cuffdiff wrapper that will generate an SQLite data base output that can be used directly in cummeRbund. +This cuffdiff builds the cummeRbund database from the cuffdiff output files in the working directory which includes the run.info output, +thus it can populate the replicates information. - - -