User: frene

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frene0
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Posts by frene

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Comment: C: DESeq2 testing ratio of ratios in a ribosomal profiling with batch
... Thanks a lot for your reply. ...
written 7 weeks ago by frene0
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Comment: C: More significant genes with alpha 0.05 than 0.1 DESeq2
... Thanks Michel, I saw a problem because with alpha 0.1 I obtained 10 genes and with 0.05, 21 genes, but it's true that the low counts rejection number of genes is greater with 0.05. Another related question to de independent filtering. This is probably because of my limited knowledge , but If y ...
written 8 weeks ago by frene0
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More significant genes with alpha 0.05 than 0.1 DESeq2
... Hello everybody, As I can read on the DESEQ2 manual, if we want an other p-adj diferent than 0.1 we have to select it by changing the alpha value. When I change it in the result formula: alpha <- 0.05 res_0.05_filt <- results(dds1,contrast=c("condition","WT", "OE"),alpha=alpha) Why ...
deseq2 written 8 weeks ago by frene0 • updated 8 weeks ago by Michael Love23k
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DESeq2 testing ratio of ratios in a ribosomal profiling with batch
... Hello everybody, I have a trouble with the analysis of a ribosome profiling. I want to do de ratio of ratios of RFP an TOTAL RNA between two genotyopes. I do more or less the same as in this post [https://support.bioconductor.org/p/61509/][1] In my case, I want to take in acount the batch to reduc ...
deseq2 written 8 weeks ago by frene0 • updated 7 weeks ago by Michael Love23k

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