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Old 10-03-2011, 11:02 AM   #1
umnklang
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Location: Minnesota, United States

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Default DEGseq calculation method

I have a question about using DEGseq. I am using it to calculation differentially expressed genes in bacteria. I have Illumina data that I have calculated RPKM from using perl scripts.

I feed that data into the DEGexp command and set rawCounts=False. I am wondering about the method = "?". Right now I use FET, but I'm not sure at all if this is correct. How does one go about choosing a method?

-K
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Old 10-09-2012, 05:48 PM   #2
wangxj
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Location: china

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Default

Hello,

I have the same question:which method should i choose?

Quote:
Originally Posted by umnklang View Post
I have a question about using DEGseq. I am using it to calculation differentially expressed genes in bacteria. I have Illumina data that I have calculated RPKM from using perl scripts.

I feed that data into the DEGexp command and set rawCounts=False. I am wondering about the method = "?". Right now I use FET, but I'm not sure at all if this is correct. How does one go about choosing a method?

-K
wangxj is offline   Reply With Quote
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