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Is the cytosine report (.CpG_report.txt.gz) analyzed from deduplicated data? #423

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gevro opened this issue Oct 9, 2024 · 1 comment

gevro commented Oct 9, 2024

Hi,
Question: Is the cytosine report (.CpG_report.txt.gz) analyzed from deduplicated data?

Seems like it from the code, but wanted to confirm definitively.

Thanks

Contributor

sateeshperi commented Dec 14, 2024

Yes by default it will analyzed from deduplicated bam unless, used with --skip_dedup param then it would be the raw aligned bam

sateeshperi closed this as completed

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