Bioconductor ColData

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806

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DESeq2 design coldata

updated 9 months ago by swbarnes2 ★ 1.4k • written 9 months ago by arfranco ▴ 130

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928

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ColData pheatmap DESeq2

written 20 months ago by dania.khalid • 0

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1.7k

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SingleCellExperiment colData rename

updated 2.0 years ago by Basti ▴ 780 • written 2.0 years ago by achoppe ▴ 10

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782

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BiSeq Coldata

4.7 years ago akhaira • 0

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1.9k

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deseq2 levels factor colData

updated 6.0 years ago by Michael Love 43k • written 6.0 years ago by ariel ▴ 20

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47k

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deseq2 coldata

updated 6.3 years ago by swbarnes2 ★ 1.4k • written 6.3 years ago by mjrarcher ▴ 10

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3.8k

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variantannotation coldata

updated 6.4 years ago by Valerie Obenchain ★ 6.8k • written 6.4 years ago by lvclark ▴ 10

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4.4k

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deseq2 coldata NA

updated 6 months ago by Michael Love 43k • written 6.6 years ago by t.kuilman ▴ 170

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1.8k

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multiassayexperiment colData

updated 7.2 years ago by Levi Waldron ★ 1.1k • written 7.2 years ago by Lluís Revilla Sancho ▴ 760

9 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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