steps to get up and down regulated genes using DESeq2
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Tony • 0
@tony-15866
Last seen 3.4 years ago

Which are the steps to get significantly up regulated and down regulated genes from samples which are not replicates?

By doing this step "dds <- DESeq(dds)" I am getting a warning message "same number of samples and coefficients to fit..."

 

Is it possible to get different combination results? The input will be multiple samples read count in a single file.

 

deseq2 without replicate no replicates • 959 views
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@mikelove
Last seen 1 day ago
United States

Replicates are required to test for significance of up and down DE.

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Okay. Which are the steps we have to use to get up regulated and down regulated genes?

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Is there any difference between old DESeq and DESeq2 in calculating the up and down regulated genes?

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This is answered in our papers and specifically in the vignette, see the Table of Contents. Please take some time to read over our documentation before posting. I want to focus my time on support questions not covered in the publications and documentation.

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