Difference between DESeq and DESeq2
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Biologist ▴ 90
@biologist-9801
Last seen 19 months ago

Hi,

Can anyone please tell me what are the main differences between Deseq and Deseq2? I guess both work on same statistical test (Negative Binomial distribution).

And for my samples using DESeq package I have used function "nbinomTest" to test for differences between the base means for two conditions. How can I do the same using DESeq2 package. I haven't found any function for this. 

Thank you.

Deseq deseq2 nbionormtest • 7.5k views
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Simon Anders ★ 3.7k
@simon-anders-3855
Last seen 14 months ago
Zentrum für Molekularbiologie, Universi…

For the differences in methodology (which are substantial), please see our paper. For explanations on how to do a simple two-group comparison, please see the Bioconductor RNA-Seq workflow or the DESeq2 package vignette.

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An elevator speech on the difference still would be useful.

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The section of the vignette is pretty brief.

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