Bioconductor GSE

Showing : GSE • reset

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1.9k

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geoquery GSE

6.2 years ago mahm ▴ 20

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2.8k

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gene expression geoquery GSE bioconductor microarray

updated 6.2 years ago by Sean Davis 21k • written 6.2 years ago by mahm ▴ 20

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1.5k

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lumi microarray GSE

updated 6.8 years ago by Gordon Smyth 51k • written 6.8 years ago by mkd12 • 0

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1.5k

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microarray GSE

7.0 years ago Salvo88 ▴ 20

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1.5k

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GSE subsetting microarray

updated 7.0 years ago by Axel Klenk ★ 1.0k • written 7.0 years ago by A ▴ 40

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1.6k

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geoquery error message GEOquery GSE GEO

7.2 years ago Barah ▴ 20

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1.8k

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GSE soft files GEO data

9.1 years ago sz • 0

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1.3k

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geoquery GSE identical row.names

updated 10.1 years ago by Sean Davis 21k • written 10.1 years ago by PyPer ▴ 20

8 results • Page 1 of 1

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Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k

You will probably have to ask the Signac people. I don't know exactly what is going on under the hood for `AddMotif`, but the `EnsDb` seems…

Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by Paul • 0

Unfortunately I've updated my code with the newest GRCm39 genome, and yet I am still getting the same error.... Is there anything else I ca…

Comment: WGCNA with TPM tables by ATpoint ★ 4.5k

WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …

Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k

The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…

Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k

I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…

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Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (

Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (

Comment: does anyone how to create rarefaction curves from a phyloseq object?

Answer: ANOVA like approach of edgeR

A: ANOVA-like test with edgeR

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