Bioconductor Within-pair analysis

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deseq2 within-pair analysis

updated 5.2 years ago by Michael Love 41k • written 5.2 years ago by frimz.r • 0

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wgcna Twin Analysis within-pair analysis paired

updated 8.5 years ago by Peter Langfelder ★ 2.8k • written 8.5 years ago by mahes.muniandy • 0

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limma GSA confounding within-pair analysis 450k

8.6 years ago Aileen Bahl ▴ 10

3 results • Page 1 of 1

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Comment: Can the limma package be applied to Log2 RUV-normalized data? by Gordon Smyth 49k

515 samples is certainly large enough.

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

Thank you for your kind response Gordon! :) Have a good time at the end of the year! Best, Yujin Kim

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…

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Answer: enrichGOgradient color change

Answer: Filter genes by expression for voomLmFit

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