User: Victor Missirian

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Posts by Victor Missirian

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Comment: C: DESeq2 setup -- regular/interaction effect with two variables + replicates -- no
... Thanks!  This really helps me out! -Victor   ...
written 3.5 years ago by Victor Missirian0
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Comment: C: DESeq2 setup -- regular/interaction effect with two variables + replicates -- no
... I have updated my original question to clarify what I have wrote above! ...
written 3.5 years ago by Victor Missirian0
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Comment: C: DESeq2 setup -- regular/interaction effect with two variables + replicates -- no
... I was hoping to perform statistical testing of the interactions between "tissue" and "treatment". Specifically how changing the tissue from GFP_minus to GFP_plus (or from All to GFP_plus) would change the treatment effect (IR_plus vs IR_minus). Thanks! -Victor ...
written 3.5 years ago by Victor Missirian0
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Answer: A: DESeq2 setup -- regular/interaction effect with two variables + replicates -- no
... I was hoping to perform statistical testing of the interactions between "tissue" and "treatment". Specifically how changing the tissue from GFP_minus to GFP_plus (or from All to GFP_plus) would change the treatment effect (IR_plus vs IR_minus). Thanks! -Victor       ...
written 3.5 years ago by Victor Missirian0
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DESeq2 setup -- regular/interaction effect with two variables + replicates -- non-standard case
... Hi Everyone, I want to use DESeq2 to perform statistical testing for: A. The effect of “treatment” (IR_plus vs IR_minus), for each specific value of “tissue” (GFP_plus, GFP_minus, or All) B. The interaction effect between "tissue" and "treatment". That is, if changing “tissue” from GFP_minus to G ...
deseq2 multiple factor design written 3.5 years ago by Victor Missirian0
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Comment: C: Question: DESeq2 - factor base level changes LFCs -- hoping to understand this b
... Thanks!  I will try turning off betaPrior! -Victor ...
written 3.5 years ago by Victor Missirian0
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Question: DESeq2 - factor base level changes LFCs -- hoping to understand this better
... Hi Michael,     I'd like to ask a question related to a previous post: "Question: DESeq2 - factor base level changes the DE genes."     I ran the following code on DESeq2 (version 1.4.5): ## START CODE sampleTable <- read.delim(sample.table.file, row.names=1, stringsAsFactors=FALSE) coldata & ...
deseq2 written 3.5 years ago by Victor Missirian0 • updated 3.5 years ago by Michael Love22k

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Popular Question 3.5 years ago, created a question with more than 1,000 views. For Question: DESeq2 - factor base level changes LFCs -- hoping to understand this better

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