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Old 10-09-2012, 10:49 AM   #4
katzman
Junior Member
 
Location: CA

Join Date: Jun 2011
Posts: 2
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I am a longtime DESeq user (and a big fan).

On my first attempt with DEXSeq, I got the same message as fpadilla while calling estimateDispersions():

Error in match.arg(start.method, c("log(y)", "mean")) : 'arg' must be NULL or a character vector

Thanks to fpadilla for the suggestion to use R 2.15.1

That eliminated that problem. Fortunately, I have not seen the subsequent problem with estimatelog2FoldChanges(). I am not (yet) running multicore.

My sessionInfo is below.

/Sol.

Code:
> sessionInfo()
R version 2.15.1 (2012-06-22)
Platform: x86_64-unknown-linux-gnu (64-bit)

locale:
[1] C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] DEXSeq_1.2.1       Biobase_2.16.0     BiocGenerics_0.2.0

loaded via a namespace (and not attached):
[1] RCurl_1.95-0.1.2 XML_3.95-0.1     biomaRt_2.12.0   hwriter_1.3      plyr_1.7.1       statmod_1.4.16   stringr_0.6.1    tools_2.15.1
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