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written 17 months ago by
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Virangika
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Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used
updated 3.0 years ago by
ATpoint
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written 3.0 years ago by
kalavattam
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updated 20 months ago by
maria.soler
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written 3.0 years ago by
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4.4 years ago
mb1996
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updated 2.3 years ago by
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written 4.9 years ago by
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Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Gordon Smyth
53k
The design matrix that I described above is completely general. I imagine that it would be possible to use the same approach to generate fu…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
•
0
Cool, glad to hear I wasn't missing some functionality in DESeq2. I don't know that much about the differences between DESeq2 vs edgeR; my …
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
Michael Love
43k
Yes, so for one thing, note that Gordon has provided code for doing what you are asking in edgeR, which you can go ahead and use.
You aske…
Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2
by
chp265
•
0
I don't think DESeq2 has the ability to do multi-contrast comparisons, at least based on what I can understand of the manual; I can pick mu…
Comment: Upcoming Ensembl API and data access changes - new blog post available
by
Hugo Gruson
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0
Thanks for the update. To be very explicit: what is going to happen to the Biomart service, on which the biomaRt bioconductor package relie…
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