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tidyverse R SingleCellExperiment SingleCellData

updated 9 months ago by daenerystargaryen56 • 0 • written 10 months ago by Sitapriya • 0

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1.2k

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edgeR R tidyverse tidybulk

23 months ago Amit Indap ▴ 10

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Rscript tidyr dataframe tidyverse offtopic

updated 2.2 years ago by Marcel Ramos 700 • written 2.2 years ago by Nikhil • 0

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bioconductor R tidyverse IlluminaHumanMethylationEPICanno.ilm10b4.hg19.

updated 6.2 years ago by James W. MacDonald 67k • written 6.2 years ago by jonellevillar • 0

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variantannotation tidyverse genomicfeatures

updated 7.1 years ago by Hervé Pagès 16k • written 7.1 years ago by yduan004 ▴ 20

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Answer: How to subset voomLmFit (MArrayLM) object? by Gordon Smyth 51k

Yes, the current behaviour is absolutely intentional. It doesn't seem to me to be meaningful or useful to try to subset the EList object au…

Answer: Need help interpreting heatmaps from limma by James W. MacDonald 67k

Heatmaps don't do any comparisons. They just plot the underlying data in a matrix and color the blocks based (in your case) on the by-gene …

Comment: Are transformed values from rlog /vst log2 normalized counts? by Eva ▴ 10

I understood exactly what you said, but I got confused with the documentation and the info that gives about rlog because it seems to be tha…

Answer: featureCounts fails to load annotation file by James W. MacDonald 67k

I imagine Wei Shi will be along later with actual help, but for now do note that you can use an SAF file instead of a GTF. It's easy enough…

Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 67k

That error indicates that you have a file called NCBI.sqlite in your working directory that is missing some tables. You should delete that …

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Answer: Are transformed values from rlog /vst log2 normalized counts?

Comment: Are transformed values from rlog /vst log2 normalized counts?

Answer: Unable to install any Bioconductor package with new R 4.4.1 - path nor writable

Removing Effect of Covariate in Only a Subset of Samples in a Model Containing All Samples Loses Full Rank if Factor but not Numerical

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Scholar to James W. MacDonald 67k