Bioconductor Iterators

Showing : iterators • reset

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r iterators performance

updated 8.6 years ago by phil.chapman ▴ 150 • written 8.6 years ago by chrisclarkson100 ▴ 50

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r findoverlaps iterators

updated 9.1 years ago by Hervé Pagès 16k • written 9.1 years ago by Jurat Shahidin ▴ 80

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foreach iterators

9.1 years ago ben.ward ▴ 30

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dnastringset parallel iterators

9.2 years ago ben.ward ▴ 30

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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…

Votes

Answer: Use of limma R package with targeted proteomics for DE analysis

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

Answer: normalizatino of dna methylation EPIC data

Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?

Suggesting changing the "reply-to" field to the mailing list address.

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