Bioconductor Multifactor

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edger design multifactor

updated 4.6 years ago by James W. MacDonald 68k • written 4.6 years ago by jackiesalzbank • 0

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1.1k

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deseq2 design multifactor

updated 5.3 years ago by Michael Love 43k • written 5.3 years ago by sxp585 • 0

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1.2k

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deseq2 multifactor interaction term gender effect 3-factors

updated 6.1 years ago by Michael Love 43k • written 6.1 years ago by kmu004 ▴ 50

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2.0k

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multifactor nested design deseq2

8.6 years ago swaegers.janne • 0

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1.9k

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edger multifactor nested design

8.8 years ago • updated 8.6 years ago swaegers.janne • 0

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4.0k

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deseq2 multifactor pairwise

9.0 years ago aziza ▴ 20

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6.0k

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deseq2 LRT multifactor contrast interactions

9.3 years ago rclaire ▴ 20

7 results • Page 1 of 1

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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

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