the quality of the arrays play a role? The QC figures are quite
bad.
Best Regards
Marco
##
cesN - process(fln, verbose=verbose)
20090609 15:57:45|Normalizing set for PCR fragment-length effects...
20090609 15:57:45| Identifying
? The QC figures are quite
bad.
Best Regards
Marco
##
cesN - process(fln, verbose=verbose)
20090609 15:57:45|Normalizing set for PCR fragment-length effects...
20090609 15:57:45| Identifying SNP and CN units...
types
Hi,
from the message
install.packages(pkgs = aws, type = source, lib =
/home/cathy/R/i486-pc-linux-gnu-library/2.6...
it looks like you have some really old settings hanging around, e.g.
R_LIBS. What does
print(.libPaths())
report?
Check Sys.getenv(R_LIBS), it might be set in your
Henrik
seems like it does not work. I went on to R2.9.0 with latest version
of aroma but I get the following:
I tried also the getAverageFile() function but with the same result. I
guess the two functions do the same thing or a very similar one?
Marco
cdf -
Thanks , Mark!
Can you show me /walk me through how to get a new snp-free CDF ? I
finally got the right version of snp and probe mapping so I am ready
to try it out!
Sabrina
On Jun 6, 3:14 am, Mark Robinson mrobin...@wehi.edu.au wrote:
Hi Sabrina.
Comments below.
On 06/06/2009, at 1:57 AM,
Hi Sabrina.
How about you try and create a 'flat' file like the one described at:
http://groups.google.com/group/aroma-affymetrix/web/creating-cdf-files-from-scratch
Presumably, you will be comfortable with the Exon Array's 'probetab'
file by now and possibly the Affymetrix annotation CSV
