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News: Course Announcement - Next Generation Data Analysis with R/Bioc (Dec 5-8, 2014)
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Comment: Can the limma package be applied to Log2 RUV-normalized data? by Shaimaa Gamal • 0
I see. Do you recommend a certain method to get norm.factors through calcNormFactors function espcially if the downstream analysis includes…
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…
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Comment: Can the limma package be applied to Log2 RUV-normalized data?
Comment: Can the limma package be applied to Log2 RUV-normalized data?
Answer: Correct the batch effect in methylation analysis in R
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Answer: Correct the batch effect in methylation analysis in R
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