DEGseq calculation method

[umnklang]

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]

Hello,

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

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