Bioconductor Single channel

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agilent single channel plotMA background correction

updated 6.6 years ago by Gordon Smyth 52k • written 6.6 years ago by CantExitVIM ▴ 10

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limma microarray agilent microarrays single channel

updated 8.1 years ago by Gordon Smyth 52k • written 8.1 years ago by ragavendrasamy.b • 0

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limma single channel microarray

updated 8.4 years ago by Ryan C. Thompson ★ 7.9k • written 8.4 years ago by sumneuron • 0

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Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k

It is not possible to use both. estimateGLMRobustDisp() estimates negative binomial dispersions for each gene, whereas glmQLFit() estimates…

Comment: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Andre • 0

Thank you. What is the difference between setting robust=TRUE in glmQLFit and estimateGLMRobustDisp? The paper i mentioned in the post used…

Comment: PCA of different bacterial species by Jeremy • 0

Your approach of using ~2500 single-copy orthologs and normalizing with VST or rlog for PCA is valid for exploring general clustering [pap…

Comment: RnBeads::combine() - error? by Urotree • 0

pheno <- rnb.set.arrays@pheno # Phenotypic data sites <- rnb.set.arrays@sites # CpG site definitions (data.frame) meth <- rnb.set…

Comment: RnBeads::combine() - error? by Urotree • 0

![enter image description here][1] [1]: /media/images/40d9778d-b044-4405-9b3d-2ba835f6 Hi, after I convert to RnBiseqSet, it shows "All…

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scater/scran with TPMs from Salmon - counts?

Answer: enrichGOgradient color change

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