Hi all I have been seeing some issues with R 2.6 (both 1 & 2) that when I normalize data using rma() or justRMA(), the data is transposed i.e. probes are columns and samples are rows. Currently I am transposing my data, but this does cause inconvenieces in analyzing data further with our normal routines. Can this be fixed? Balasubramanian Ganesan Research Assistant Professor Center for Integrated BioSystems Utah State University 4700 Old Main Hill Logan UT 84322 balag at cc.usu.edu
Problems with RMA normalization in 2.6 versions
3 messages · Balasubramanian Ganesan, Simon Urbanek
Wrong list - R-SIG-Mac is about Mac related questions concerning R (as the name says). Your question has nothing to do with R itself or with Macs. Try BioC help lists since you're talking about 3rd party (BioC) contributed packages below. Thanks, Simon
On Mar 4, 2008, at 4:08 PM, Balasubramanian Ganesan wrote:
Hi all I have been seeing some issues with R 2.6 (both 1 & 2) that when I normalize data using rma() or justRMA(), the data is transposed i.e. probes are columns and samples are rows. Currently I am transposing my data, but this does cause inconvenieces in analyzing data further with our normal routines. Can this be fixed? Balasubramanian Ganesan Research Assistant Professor Center for Integrated BioSystems Utah State University 4700 Old Main Hill Logan UT 84322 balag at cc.usu.edu
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My apologies!!
On Mar 4, 2008, at 3:16 PM, Simon Urbanek wrote:
Wrong list - R-SIG-Mac is about Mac related questions concerning R (as the name says). Your question has nothing to do with R itself or with Macs. Try BioC help lists since you're talking about 3rd party (BioC) contributed packages below. Thanks, Simon On Mar 4, 2008, at 4:08 PM, Balasubramanian Ganesan wrote:
Hi all I have been seeing some issues with R 2.6 (both 1 & 2) that when I normalize data using rma() or justRMA(), the data is transposed i.e. probes are columns and samples are rows. Currently I am transposing my data, but this does cause inconvenieces in analyzing data further with our normal routines. Can this be fixed? Balasubramanian Ganesan Research Assistant Professor Center for Integrated BioSystems Utah State University 4700 Old Main Hill Logan UT 84322 balag at cc.usu.edu
_______________________________________________ R-SIG-Mac mailing list R-SIG-Mac at stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/r-sig-mac
Balasubramanian Ganesan Research Assistant Professor Center for Integrated BioSystems Utah State University 4700 Old Main Hill Logan UT 84322 balag at cc.usu.edu