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10 months ago • updated 9 months ago
mohammedtoufiq91
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Ke
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3 months ago • updated 11 weeks ago
Jitendra
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Robert Ivanek
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written 3.0 years ago by
ltzhou
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updated 8 months ago by
Gordon Smyth
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written 22 months ago by
Mohamed
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written 9.3 years ago by
chandlerjd58
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updated 11 months ago by
Gordon Smyth
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written 17 months ago by
Sabiha
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updated 5 months ago by
Rory Stark
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written 6.6 years ago by
kyliecode
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updated 4 months ago by
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written 7.3 years ago by
prp291
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updated 7 months ago by
Nat.Nataren
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updated 11 months ago by
Guido Hooiveld
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730
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Recent ...
Replies
Answer: Numerical differences in DESeq2 output depending on different design matrix cons
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Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs
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Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
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Hi,
I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation.
Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
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swbarnes2
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If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
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The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed.
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