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Comment: Representation of self-loops and the calculation of degrees by Vincent J. Carey, Jr. 6.7k
> packageVersion("graph") [1] '1.79.2' > gn <- graphNEL(nodes=c('A','B'), edgeL=list(A=c('A','B'), B=c('A')), edgemode='undirec…
Comment: filtering out lowly expressed genes by groups by sohail.mbio ▴ 10
My question is how to avoid these DEGs? There are so many DEGs that are not actually expressed at T0. Is there any filter ? my current code…
Answer: Why dbConnect GEOmetadb_demo.sqlite shows some information while dbConnect GEOme by James W. MacDonald 63k
The current `GEOmetadb.sqlite` file apparently has no entries for the `bioc_package` field. The table isn't empty however. ``` ## > z…
Answer: DMRcate design by James W. MacDonald 63k
The help page for `cpg.annotate` says this: ``` design: Study design matrix. Identical context to differential analysis pipe…
Comment: filtering out lowly expressed genes by groups by James W. MacDonald 63k
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Comment: Timely differentially expressed genes
Comment: NPARC package y-variable
Comment: List of Deprecated Packages for Bioc3.18
Answer: Manual creation of qPCRset does not work
Answer: MDS plot edgeR
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