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  • How do I create a summarized experiment object for DeSeq2??

    Hi, I have Htseq count table for my data but I want to do a DeSeq2 analysis. I have 8 groups that share the same gene IDs, and want to organize them into summarizedexperiment object. I feel like I can't find the exact steps online through google search. I eventually want to compare each of them through different interactions. Thanks!

  • #2
    There's no reason to directly make a SummarizedExperiment when you can simply use the DESeqDataSetFromHTSeqCount().

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    • #3
      For Bioconductor software, the exact steps are found in the software vignette. In the R console type:

      vignette("DESeq2")

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