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Dseq2
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Questions in Regards to LFC shrinkage in DESeq2
Dseq2
RNASeqData
apeglm
10 weeks ago
Gordon
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Inccorect group number in DGEList
edgeR
Bioconductor
Dseq2
dgelist
updated 22 months ago by
Gordon Smyth
51k • written 22 months ago by
Fiona
• 0
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Dseq2 gives the same results no matter the condition ???
dseq2
6.4 years ago
Bioinformatics
▴ 30
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Comment: Volcano plot has many values around zero
by
Michael Love
42k
It's positive over zero or nearly so.
Answer: Volcano plot has many values around zero
by
swbarnes2
★ 1.4k
You've got genes with supposedly have a 32-fold difference, and the adjusted p-values are < 1x10-10? That seems odd.
Comment: Volcano plot has many values around zero
by
mjun
• 0
Why this cluster close to 0 with low p value is so distinctive. Is this common? What does it mean and why? Thanks
Comment: Volcano plot has many values around zero
by
swbarnes2
★ 1.4k
I don't think this is evidence that the dataset is invalid. It's evidence that your experiment is underpowered, and/or your experimental c…
Comment: Differential Expression Analysis with unbalanced batches without replication bet
by
Gordon Smyth
51k
Have you read the totalVI documentation?, which says: > **Important** > We do not recommend using totalVI denoised values in other differ…
Votes
Comment: Weird looking volcano plot
Volcano plot has many values around zero
A: Up/Down Regulated GeneList from edgeR and R
A: Up/Down Regulated GeneList from edgeR and R
A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis
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