7.8 years ago • updated 7.7 years ago
Campbell.1933
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Gordon Smyth
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written 9.1 years ago by
Ryan C. Thompson
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Christopher
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7.2 years ago • updated 6.9 years ago
raf4
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9.2 years ago
samuel collombet
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9 months ago • updated 8 months ago
Gerhard Thallinger
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J-E
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lauren.fitch
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barrel0luck
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9.0 years ago
beiting
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C T
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updated 5.5 years ago by
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Answer: ATACseq merge peaks
by
ATpoint
★
4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
camp
▴
10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative?
by
ATpoint
★
4.0k
I do not know this decontamination tool you use but generally:
If these counts are basically "corrected" raw counts in the sense that they'…
Answer: Improving the design matrices vignette in RNAseq123
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Gordon Smyth
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Thanks to Shian Su, we have confirmed that the problem in the design matrices vignette html is caused by a bug in knitr 1.44 (to do with sp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
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0
Thank you for your comment!
I'll review my code from top to bottom.
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