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Answer: Correlation between two different datasets: between results of RNAseq and absenc
by
Michael Love
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Re: LFC, if you are working with this and then downstream analysis, I'd recommend `lfcShrink` if you aren't already using this. It will shr…
Answer: Strange Dispersion plot
by
Michael Love
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This indeed looks strange, I would immediately suspect some weird batch effects. Try all kinds of diagnostic plots like, boxplot, PCA, corr…
Answer: Correlation between CpG methylation and gene expression from DESeq2-> Normalizat
by
Michael Love
37k
In this case, can you say why you want to normalize for gene length? In our tximport/tximeta pipeline, it would correct for differential ge…
Comment: Which is the best type of data for correlation or survival analysis
by
Michael Love
37k
VST is the variance stabilizing transformation, and in the code it produces `vsd` a variance stabilized dataset. VST data = `vsd`.
> can I…
Comment: Error in Create switchAnalyzeRlist
by
bpshtiwan
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10
Definitely, you are right.
I Checked the ref file (cDNA fasta and gtf file ) gene Id is different. I downloaded both gtf and cDNA fasts fi…
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