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Answer: how do singleton samples contribute to dispersion estimate in DESeq2?
For that type of design, they do not really just much information about the dispersion. But the dispersion estimates are MLE and not based …
Answer: Should 0 values for gene counts be removed prior to ssGSEA/GSVA analysis?
Hi, we advice to remove lowly-expressed genes in the same way you would do it before a differential expression analysis. This has been prev…
Answer: Error message: Could not find function "DESeqDataSetFromMatrix"
James W. MacDonald
Any time you see an error that ends with ``` could not find function "<function name goes here>" ``` it means that you haven't load…
Comment: Seeking help in multifactor differential gene expression analysis using DESeq2.
Thanks for your kind reply. Those genes belong to HSP20, Suppose to have high expression under HT but if we look into the table its has hig…
Answer: Seeking help in multifactor differential gene expression analysis using DESeq2.
Those look like different results to me. It's not at all clear why you are so sure it's wrong. Have you eyeballed to expression of those …
XVector installation fails because zlib.h is not found
A: what is fitProbeLevelModel()? doing
Answer: How fix lines of dendrogram that overlap in the column portion of a heatmap?
how do singleton samples contribute to dispersion estimate in DESeq2?
Answer: Combine GRanges(List) to a single GRanges with unified breakpoints
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