Bioconductor Airway

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airway

updated 2.9 years ago by ATpoint ★ 4.6k • written 2.9 years ago by j.jacob1 • 0

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815

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RNASeq DESeq2 airway

updated 3.0 years ago by Michael Love 43k • written 3.0 years ago by dmbergau • 0

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airway

4.7 years ago brest • 0

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RNAseqdataset airway deseq2 rangedsummarizedexperiment rnaseqgene

updated 6.8 years ago by mario.zanfardino ▴ 160 • written 6.8 years ago by ap3637 • 0

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airway

updated 7.9 years ago by Martin Morgan 25k • written 7.9 years ago by liyi983923 • 0

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airway

updated 9.1 years ago by Dan Tenenbaum ★ 8.2k • written 9.1 years ago by jmmonroykuhn • 0

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1.2k

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deseq2 airway

updated 9.3 years ago by Michael Love 43k • written 9.3 years ago by pcantalupo ▴ 10

7 results • Page 1 of 1

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Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k

Since the intra-block correlation is negative, it would be best to remove `block` from the model. My experience with genetically identical…

Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by anna.cot.anna.cot ▴ 30

Thank you! This is actually quite close to my real dataset. I simplified the names to make it easier as an example, but I have now correcte…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Tim Peters ▴ 200

Hi Xiaofei, Is it possible to generate a matrix of beta values or M-values with rownames as probe IDs from this data? If so, cpg.annotate(…

Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by Gordon Smyth 52k

That looks basically correct, although the terms that you are inputing to `makeContrasts` do not match the condition names in the targets f…

Comment: Normalizing batch effects using technical replicates for DGE analysis between tw by James W. MacDonald 67k

Oh, right. There's two ways to enter code. If you are in the middle of a sentence and you want to include a function name, you wrap the nam…

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Answer: nightmare to make custom txdb for genomes from ToxoDB

Comment: nightmare to make custom txdb for genomes from ToxoDB

Answer: Normalizing batch effects using technical replicates for DGE analysis between tw

Answer: nightmare to make custom txdb for genomes from ToxoDB

A: Advice on correcting for batch effect using DESeq2

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Scholar to James W. MacDonald 67k