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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 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
D
▴ 10
3
votes
1
reply
6.3k
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edgeR: exactTest, glmFIt or glmQLFit approach?
edger
rnaseq
glm
glmfit
updated 8.8 years ago by
Aaron Lun
★ 28k • written 8.8 years ago by
alessia.donato
• 0
0
votes
3
replies
2.5k
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Standard errors of fitted values from glmFit in edgeR
edger
standard error
glmfit
8.9 years ago
david.hughes
• 0
7
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5
replies
4.2k
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edgeR effects of design on testing main effects and interactions
edger
glmfit
glmlrt()
updated 9.5 years ago by
Aaron Lun
★ 28k • written 9.5 years ago by
cadeans
• 0
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Answer: DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change
by
James W. MacDonald
68k
Yes, you can simply flip the sign of the logFC to reverse the direction of the comparison.
Comment: Heatmap of a transformed deseq object with pheatmap
by
James W. MacDonald
68k
The argument for annotation_col is meant to be a `data.frame`, not a vector. The hint in the error is that it has the wrong number of dimen…
Comment: Heatmap of a transformed deseq object with pheatmap
by
caroline.zanchi
• 0
I used this argument in the second paragraph of code forthe heatmap, this is wehre I got the message Error in `[.default`(annotation_col, c…
Answer: Heatmap of a transformed deseq object with pheatmap
by
James W. MacDonald
68k
Ah, yes. The non-ASCII character error. My favorite! Please note that `pheatmap` is not a Bioconductor package, so you should be asking …
Comment: Heatmap of a transformed deseq object with pheatmap
by
caroline.zanchi
• 0
It is in ! It just took longer than planned :) ... aaaand now that I added the heatmap in I realize lits of genes really do not look like t…
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Comment: Heatmap of a transformed deseq object with pheatmap
DESeq2: Question about the alpha in summary() and results()
Comment: How to load scRNA-seq data from GEO
limma correction for tumor purity
limma correction for tumor purity
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