Bioconductor GSE

Showing : GSE • reset

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2.0k

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geoquery GSE

6.5 years ago mahm ▴ 20

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3.0k

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gene expression geoquery GSE bioconductor microarray

updated 6.5 years ago by Sean Davis 21k • written 6.5 years ago by mahm ▴ 20

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1.6k

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lumi microarray GSE

updated 7.1 years ago by Gordon Smyth 52k • written 7.1 years ago by mkd12 • 0

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1.6k

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microarray GSE

7.3 years ago Salvo88 ▴ 20

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1.6k

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GSE subsetting microarray

updated 7.3 years ago by Axel Klenk ★ 1.1k • written 7.3 years ago by A ▴ 40

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1.8k

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geoquery error message GEOquery GSE GEO

7.5 years ago Barah ▴ 20

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1.9k

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GSE soft files GEO data

9.4 years ago sz • 0

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1.4k

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geoquery GSE identical row.names

updated 10.4 years ago by Sean Davis 21k • written 10.4 years ago by PyPer ▴ 20

8 results • Page 1 of 1

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Comment: Use of limma R package with targeted proteomics for DE analysis by svlachavas ▴ 840

Dear Gordon, thanks a million for your reply (just saw it, did not get any notification through email) !! Regarding the log2 transformation…

Answer: cameraPR() non directional test by Gordon Smyth 52k

Yes, you can still do non-directional tests using cameraPR(), but it's not quite as easy as it was using the original camera() function as …

Answer: WGCNA with paired samples by Ivo • 0

You can use batch correction on the person ID and then continue WGCNA as usual using the corrected matrix. You can use e.g. sva::ComBat or …

Answer: Plot title for PCA in DESeq2 by ATpoint ★ 4.7k

The function uses ggplot2, so you need `+ ggtitle('title')`. Please take a ggplot2 tutorial for details.

Comment: DESeq2 It is correct to use interaction term for patient variability? by Bradley • 0

I apologize, but I am still perplexed. I need to know the exact type of replication. Do we have many samples taken from the same tumor? You…

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Answer: limma::voom vs edgeR::voomLmFit - when to use?

Comment: limma::voom vs edgeR::voomLmFit - when to use?

Answer: Plot title for PCA in DESeq2

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