Comments (3)
PeteHaitch
commented on July 18, 2024
If you're BSseq object is called bsseq, then bsseq[seqnames(bsseq) != "chrY", ]or bsseq[seqnames(bsseq) != "Y", ] will do it (depending on what the Y chromosome is named in your data).
General question like this are better posted to https://support.bioconductor.org/.
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demis001
commented on July 18, 2024
@PeteHaitch I just registered to bioconductor.org, and the site couldn't allow me to create a new post. I want to bother you one more time. I initially filtered CpG loci with a median coverage of 4 or greater with 50% or less missing value among all participants. Would you please guide me on how to apply imputation to both "M" and "Cov" in the BSseq object?
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PeteHaitch
commented on July 18, 2024
I've never used imputation.
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