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dealing with outliers (deseq2)
maxcooks outliers zero counts DESeq2
updated 20 months ago by 41k • written 20 months ago by ▴ 10
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DESeq estimateSizeFactors() is returning error "Error: all(!is.na(value)) is not TRUE"
deseq2 error R estimatesizefactors zero
updated 20 months ago by • 0 • written 6.2 years ago by • 0
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DESeq2 input data contains 0
deseq2 input files zero
updated 6.3 years ago by 41k • written 6.3 years ago by • 0
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Answer: RNASeq time course analysis, missing time points for control by Gordon Smyth 48k
You could fit a spline trend with design matrix `treatment+spline`. Then it won't matter than the control and treatment times don't match u…
Comment: DESeq2 - groups with biological replicates from the same patient by Oscar • 0
Thanks James for your helpful response. This particular experimental set up is very common in iPSC studies, where multiple differentiations…
Comment: DESeq2 test for synergistic vs additive effects by Jay • 0
Why is TrtAB - TrtA - TrtB + Control "not really a thing"? i came to this forum answer when attempting to use EdgeR to answer a similar que…
Comment: NCBI protein conversion to CDNA and NCBI gene (in R) by Gordon Smyth 48k
Continuation of https://support.bioconductor.org/p/9155428/
Comment: Why is DMRcate not available for Bioconductor version 3.18? by Tim Peters ▴ 150
Thanks Daniel, Gordon and Lori for flagging this. DSS is only needed for the vignette so I'll remove that section, plus the dependency, som…
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Answer: Confused about the CPM and TMM normalization in edgeR
Answer: Differential gene expression analysis
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
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