Bioconductor RCurl

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biomaRT Rcurl phytozome

updated 5.8 years ago by Mike Smith ★ 6.6k • written 5.8 years ago by s.nielsen ▴ 20

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arrayexpress xml rcurl http EBI

updated 7.4 years ago by Wolfgang Huber ★ 13k • written 7.4 years ago by Bernd Klaus ▴ 610

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microarrays xml RCurl libxml2 libcurl

updated 8.0 years ago by Martin Morgan 25k • written 8.0 years ago by farahqureshi5 • 0

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deseq2 rcurl annotate genefilter geneplotter

updated 8.1 years ago by Martin Morgan 25k • written 8.1 years ago by Rémi Willamme ▴ 10

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biomart proxy rcurl

updated 9.3 years ago by hygine ▴ 140 • written 9.3 years ago by enricoferrero ▴ 680

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RCurl

9.6 years ago yueli7 ▴ 20

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scan.upc geoquery rcurl

10.1 years ago lep ▴ 90

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Install cummerbund Rcurl xml

updated 10.4 years ago by Martin Morgan 25k • written 10.4 years ago by dnajuice ▴ 20

8 results • Page 1 of 1

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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…

Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k

VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…

Answer: Use of limma R package with targeted proteomics for DE analysis by Gordon Smyth 52k

It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…

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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.

Answer: UniProt.ws query for single UniRef90 ID takes several minutes

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