Thread: DESeq problems
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Old 10-03-2011, 04:45 AM   #1
janec
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Location: Scotland

Join Date: Jun 2011
Posts: 3
Default DESeq problems

I'm running DESeq for the first time and am having a few problems. I'm working through the documentation dated August 11, 2011.

I had no problems setting up a CountDataSet object with my counts table and can access the counts and estimate size factors for samples fine.

However when I tried to call the normalised counts, using the "normalized = TRUE" argument for the counts accessor, it says that there's no argument with that name. When I look at the man page for "counts", it also appears to have no arguments other than the name of the object it is counting.

I skipped that step and went on to the variance estimation stage, but when I try to run the estimateDispersions function I get a "function not found" message.

Is there something else I need to have installed?

Cheers!
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