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glmfit
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EdgeR - How to set up the design matrix for a multifactorial experimental design with interactions?
edger
edger main and interaction effects
glmfit
updated 5.5 years ago by
Aaron Lun
★ 28k • written 5.5 years ago by
D
• 0
3
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1
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4.9k
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edgeR: exactTest, glmFIt or glmQLFit approach?
edger
rnaseq
glm
glmfit
updated 7.4 years ago by
Aaron Lun
★ 28k • written 7.4 years ago by
alessia.donato
• 0
0
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3
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1.8k
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Standard errors of fitted values from glmFit in edgeR
edger
standard error
glmfit
7.5 years ago
david.hughes
• 0
7
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5
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3.3k
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edgeR effects of design on testing main effects and interactions
edger
glmfit
glmlrt()
updated 8.1 years ago by
Aaron Lun
★ 28k • written 8.1 years ago by
cadeans
• 0
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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…
Votes
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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