User: Chris Stubben

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Posts by Chris Stubben

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Comment: C: Reordering factor levels in DESeq2 causes results error in cleanContrast
... It's not very clear in the Note on Factor Levels in the DESeq2 vignette that you should not reorder factors after running DESeq2.   I will only reorder factors in sample tables from now on. ...
written 26 days ago by Chris Stubben0
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Reordering factor levels in DESeq2 causes results error in cleanContrast
... I recently updated to R version 3.4.2 and noticed that DESeq2 results now returns an error if I relevel the factors.   library(DESeq2) cnts <- matrix(rnbinom(n=1000, mu=100, size=1/0.5), ncol=10) samp <- data.frame( cond=factor(rep(c("a", "b"), each=5))) dds <- DESeqDataSetFromMatrix(cnts ...
deseq2 written 26 days ago by Chris Stubben0 • updated 26 days ago by Michael Love15k

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