User: Daniele.Muraro

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Posts by Daniele.Muraro

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Comment: C: DESeq2: Interaction term on simulated data
... Thank you very much for your availability; it was very helpful. Best, Daniele ...
written 4 months ago by Daniele.Muraro10
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Comment: C: DESeq2: Interaction term on simulated data
... Below the updated code and plots. Best, Daniele   Updated Plots: https://www.dropbox.com/s/dtu6h4fru5xl5mk/Simulated_Data_With_Null_Genes.pdf?dl=0 Updated Code: library("DESeq2") library("ggplot2") npg <- 20 mu <- 2^c(8,10,9,11,10,12) condition <- rep(rep(c("A","B"),each=npg),3) ge ...
written 4 months ago by Daniele.Muraro10
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Comment: C: DESeq2: Interaction term on simulated data
... Hi Michael, Thank you very much for your helpful reply. I have tried to include simulated null genes (G3.1,...,G3.100) and the p-values and log2 fold changes associated with the interaction terms are now what I would expect: the interaction terms for genotype II and genotype III are nearly 0 when c ...
written 4 months ago by Daniele.Muraro10
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DESeq2: Interaction term on simulated data
... Hi all, I am getting acquainted with the analysis of interaction terms using DESeq2 and I am having some difficulty interpreting the results. I am simulating data with 3 genotypes and 2 conditions as in the vignette: http://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.ht ...
deseq2 written 4 months ago by Daniele.Muraro10 • updated 4 months ago by Michael Love14k

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