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branchpointer: trouble to read gtf
gtfToExons "Error:subscriptcontainsinvalidnames" gtf branchpointer
updated 26 days ago by • 0 • written 26 days ago by • 0
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Comment: DESeq2 version by adeler001 • 0
ok thank you for your response
Answer: DESeq2 version by Michael Love 34k
RStudio makes no difference, DESeq2 is based on R version. You can look up specific releases of Bioconductor by changing the URL: ht…
Comment: Contrast treated samples against both scramble and untreated controls by Michael Love 34k
Yes, for a typical `model.matrix` setup it should give `c(0,-.5,1)`
Comment: Contrast treated samples against both scramble and untreated controls by oliver.ziff • 0
Thank you @mikelove ! Yes, averaging the difference between Knockdown vs scramble and Knockdown vs untreated is a much better solution. S…
Comment: ggtree install by Brock • 0
For what it's worth, I didn't want to update my R version (4.0.5) so I downgraded rvcheck to v. 0.1.8 using: `devtools::install_version('r…
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Comment: Contrast treated samples against both scramble and untreated controls
Comment: Model matrix not full rank, then
Testing three-way interactions in DESeq2
Answer: Contrast treated samples against both scramble and untreated controls
Comment: DESeq2 Normalization
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