To whom it may concern,
I'm analyzing some Affy human exon array data and hope to generate
similar plots as seen in the supplementary figures in the Purdom 2008
Bioinformatics paper. To do so, I need to get the normalized probe
intensities and residuals.
I've already followed the steps described in the Human Exon Array
Analysis vignette and get the following:
(1) ...
csN <- process(qn, verbose=verbose)
(2) ...
res<-getResidualSet(plmTr)
I tried the function "extractDataFrame(...,addNames=TRUE)" hoping to
get the data plus column labels for my samples but it didn't work. Is
there any easy way to extract these two sets of data in matrix format
similar to the FIRMA score matrix with probe ID and column labels?
Thanks,
Jing
Jing Ma
Hartwell Center for Bioinformatics & Biotechnology
St. Jude Children's Research Hospital
--~--~---------~--~----~------------~-------~--~----~
When reporting problems on aroma.affymetrix, make sure 1) to run the latest
version of the package, 2) to report the output of sessionInfo() and
traceback(), and 3) to post a complete code example.
You received this message because you are subscribed to the Google Groups
"aroma.affymetrix" group.
To post to this group, send email to aroma-affymetrix@googlegroups.com
To unsubscribe from this group, send email to
aroma-affymetrix-unsubscr...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/aroma-affymetrix?hl=en
-~----------~----~----~----~------~----~------~--~---
