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Answer: emptyDrops new default alpha = Inf giving far fewer non-empty droplets than unde
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Aaron Lun
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I suspect the real problem is that the knee point is not being identified correctly in your plot. Visually, I would put the knee point some…
Comment: heatmap with batch effect
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mike
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This is a really helpful discussion about addressing batch effects in heatmap visualizations. It's insightful to see the challenges when co…
Comment: How to use limma to analyze complex temporal RNAseq data
by
Jinming Cheng
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0
Hi Jiahao,
Thanks for more details about your analysis! For my design (`~ 0 + group + time`), confounding factors or interactions were not…
Comment: How to use limma to analyze complex temporal RNAseq data
by
Jiahao Tian
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0
Hi Jinming,
Great thanks for your reply! I have no doubt that `voomLmFit` handles complex temporal variations.
However, I suspect that yo…
Comment: emptyDrops new default alpha = Inf giving far fewer non-empty droplets than unde
by
Peter Hickey
▴
760
Session info
``` r
> sessionInfo()
R version 4.5.1 (2025-06-13)
Platform: x86_64-pc-linux-gnu
Running under: Red Hat Enterprise Linux 9.3 …
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