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Comment: fail to use addPerROIQC in Rmd
by
liu.n
• 0
Hi, what's the output from `dim(spe)`?
Answer: DESeq2- merging technical vs biological replicates
by
Michael Love
43k
Technical replicates (more sequencing of same library) you can use `collapseReplicates()`. But biological replicates are best handled wi…
Answer: lfcShrink and alpha value
by
Michael Love
43k
`summary()` is just printing a particular `alpha`, but you can do: ``` summary(res, alpha = ...) ```
Answer: DESeq2 dispersion estimates fitting drastically different based on explanatory v
by
Michael Love
43k
> DESeq2 treats this as a numeric variable with a range from 19560-19660 And it gives a warning to not use this type of covariate, which…
Comment: fail to use addPerROIQC in Rmd
by
joseph.joonsang
• 0
Yes, I did. Here is my code. data.path <- "~/GeoMx_best_practice/data/" filepath <- paste(data.path, "Joon_QC_NPC_4_…
Votes
Answer: DESeq2- merging technical vs biological replicates
Comment: What type of counts data to import for performing Isoform analysis in edgeR
Answer: What type of counts data to import for performing Isoform analysis in edgeR
Transcript-level differential expression using DESeq2
Comment: What type of counts data to import for performing Isoform analysis in edgeR
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