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Replies
Answer: Differentially expressed genes in monocle pseudotime
by
Gordon Smyth
50k
You might try the methods in this paper:
Cheng J, Smyth GK*, Chen Y* (2023). Unraveling the timeline of gene expression: A pseudotempora…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa
by
Seyram M.
•
0
Thank you Michael for your attention to my question. I am truly grateful.
I subsetted the data using lines of codes to include only the g…
Comment: [DiffBind] Obtaining normalization factors
by
Henry
▴
10
I see, thank you for your suggestion! I managed to use a separate RLE normalization to obtain the size factors.
Answer: Memory errors using read.bismark?
by
Peter Hickey
▴
690
Thanks for sharing an example file.
This is a very large non-CpG methylation dataset, which are tricky to work with for a number of reason…
Comment: Reading huge bismark coverage files using bbseq::read.bismark
by
Peter Hickey
▴
690
Superficially, your issue is similar to [https://github.com/hansenlab/bsseq/issues/136](https://github.com/hansenlab/bsseq/issues/136).
You…
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