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cufflinks
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cummeRbund grouping by TSS / CDS / Isoforms
cummrbund
cufflinks
7.1 years ago
corend
• 0
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Basic Question: How to get appropriate pDATA structure in monocle from cufflinks/cuffnorm
cufflinks
monocle
7.5 years ago
alexandriapinto1
▴ 10
3
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5
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3.0k
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(how) can I make heatmaps/PCA in DESeq2 using normalized counts from cummeRbund?
deseq2
cummerbund
cufflinks
updated 9.3 years ago by
Michael Love
43k • written 9.3 years ago by
Jon Bråte
▴ 260
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Answer: Deseq2 res Function
by
Michael Love
43k
> Does this mean the young and KO groups were numerators and denominators in the analysis, respectively? Read over the vignette and work…
Answer: ANOVA like approach of edgeR
by
Gordon Smyth
51k
You need to clarify whether interactions are present for the two factors in your study. In the two factors do not interact, then the code y…
Answer: Create Illmina bead summary data
by
Gordon Smyth
51k
GenomeStudio produces IDAT files that you can read using the `read.idat` function in limma. That is the recommended way to read GenomeStudi…
Comment: Help with RSEM counts: do I transpose matrix?
by
NB
• 0
OK thank you.
Comment: Help with RSEM counts: do I transpose matrix?
by
James W. MacDonald
67k
You can ask here, but please read the `DESeq2` vignette first, which should answer most questions.
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Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
Answer: ANOVA like approach of edgeR
Comment: ANOVA like approach of edgeR
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