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PlotCounts DESeq2 - how to plot count s for specific samples?
DESeq2
PlotCounts
14 months ago
annamariabugaj
▴ 10
1
vote
4
replies
1.6k
views
plotCounts to visualize variations of a specific genes along conditions
DESeq2
plotCounts
vst
updated 18 months ago by
Michael Love
41k • written 18 months ago by
Laia
▴ 10
0
votes
2
replies
1.5k
views
How to plot gene counts using plotCounts() with just an individual contrast?
DESeq2
plotCounts
updated 3.0 years ago by
Michael Love
41k • written 3.0 years ago by
elizabethe819
• 0
0
votes
1
reply
962
views
Deseq2 how to get input data for plotCounts for a single gene
deseq2
plotcounts
updated 4.0 years ago by
Michael Love
41k • written 4.0 years ago by
sunthomas
• 0
0
votes
1
reply
1.3k
views
plot statistic values in a DEseq2 plotCounts plot
deseq2
plotCounts
pvalues
RNAseq
updated 4.3 years ago by
Michael Love
41k • written 4.3 years ago by
anne.hoffrichter
• 0
0
votes
3
replies
2.0k
views
Change order of conditions when plotting: plotCounts {DESeq2}
R
deseq2
plotcounts
5.0 years ago
ecg1g15
▴ 20
0
votes
5
replies
1.3k
views
Error DESeq2 plotCounts invalid class DESeqDataSet object undefined class for slot rowRanges GenomicRangesORGRangesList
deseq2
plotCounts
rowRanges
updated 5.7 years ago by
Michael Love
41k • written 5.7 years ago by
I.Castanho
▴ 50
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Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Comment: Too many significant genes when integrating gtex and tcga
by
Michael Love
41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Answer: Too many significant genes when integrating gtex and tcga
by
James W. MacDonald
65k
See `?results`, in particular the lfcThreshold argument.
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Votes
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
stuck on unimplemented type 'list' in 'EncodeElement'
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