Bioconductor MsnID

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rforproteomics proteomics msnid msnbase

3.7 years ago daniel.magnus.bader ▴ 40

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msnbase msmstests proteomics lc-ms/ms msnID

updated 4.8 years ago by Laurent Gatto 1.6k • written 4.8 years ago by fgol ▴ 10

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pbase MsnId mzid msnbase

updated 7.8 years ago by Sebastian Gibb ▴ 80 • written 7.8 years ago by viswanathan.raghuram • 0

3 results • Page 1 of 1

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Comment: Agilent Microarray Gene Oncology analysis gone wrong by SamGG ▴ 320

Gordon said to let coef to its default value: topTable(fit, n=20)

Comment: Can the limma package be applied to Log2 RUV-normalized data? by Shaimaa Gamal • 0

Hi Gordon, On what basis we can determine whether the dataset is large or not? I am working on a dataset of 515 samples and 5440 genes. I w…

Comment: Agilent Microarray Gene Oncology analysis gone wrong by samagbeyimodupe • 0

Thank you for the quick response. i ran the codes again and removed all the other arguments for eBayes except for fit. I ran the line of co…

Comment: Correct the batch effect in methylation analysis in R by Gordon Smyth 49k

> Is it okay to apply removeBatchEffect before a limma analysis(limma linear model)? No, you should not apply any batch correction before …

Comment: Correct the batch effect in methylation analysis in R by kyj2226 • 0

Thank you for your response Gordon :) I've already run the code below, just add batch to the limma linear model design <- model.matri…

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Answer: enrichGOgradient color change

Answer: Filter genes by expression for voomLmFit

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