Bioconductor Clariom

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Clariom Align MicroarrayData Alignment Microarray

22 months ago agamemnon • 0

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clariom oligo affycoretools pd.hugene.2.0.st

updated 5.8 years ago by James W. MacDonald 67k • written 5.8 years ago by svlachavas ▴ 840

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clariom pd.clariom.d.human

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

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Rna degradation Clariom

updated 6.8 years ago by James W. MacDonald 67k • written 6.8 years ago by kritikamish99 ▴ 10

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affycoretools clariom

updated 7.3 years ago by James W. MacDonald 67k • written 7.3 years ago by willj ▴ 30

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oligo microarray clariom

updated 7.5 years ago by James W. MacDonald 67k • written 7.5 years ago by kmvaldez2 • 0

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clariom genefu

7.5 years ago info • 0

7 results • Page 1 of 1

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Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu by Nicholas • 0

Just an update on this: I tried ```tximport``` with ```tx2gene``` objects from the three annotation packages and from the GTF file itself. …

Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu by Nicholas • 0

Got it, so using the GTF directly rather than any of the annotation packages will yield more accurate results than any of the packages? I g…

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

I agree that it's difficult to match an `EnsDb` object to the build, but I think that is orthogonal to OP's issue, which is mapping transcr…

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

I see. Thank you for your advice! In my case per James' suggestions, I redesigned the model to `~ DonorID + Subset + Conditions` as Date_…

Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu by ATpoint ★ 4.6k

> that you should stick with whatever IDs you started with, Meaning, you got your fasta file for the kallisto index from somewhere, e.g. …

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Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu

Answer: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu

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

Why did PCA plots look exactly the same after adjusting for batch covariate in DESeq2 design?

A: Trajectory analysis for single cell sequencing

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Popular Question to Assa Yeroslaviz ★ 1.5k