Bioconductor Update problem

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update problem

updated 5.5 years ago by Martin Morgan 25k • written 5.5 years ago by ajaz240792 ▴ 10

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Comment: iam not able to do retrive data using GEOquery R package by James W. MacDonald 67k

Another alternative is to use the `GEOmetadb` package ([vignette here)][1], which will allow you to make queries to identify GEO datasets t…

Answer: iam not able to do retrive data using GEOquery R package by James W. MacDonald 67k

Before you try to use a function, you should read the help page to ensure that you are using the correct argument type. As an example, here…

Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu by James W. MacDonald 67k

It's not the version control in R/Bioconductor though. It's the version of the genome. OP used Ensembl build 113 to align and then noted th…

Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D by Quang ▴ 10

Also, Michael, when I used SVA in addition, so I have the `design = ~ Date_lysed + SV1 + condition_subset`, do I just set `mat_corrected <-…

Comment: Differential variability modelling with vst() expression by Michael Love 43k

See Gordon's reply below for an implementation you can use directly.

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