after samtools sort -n, the bam header still has @HD SO:unsorted instead of @HD SO:queryname. Is this a bug?
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telos,
The author addresses that question in this this thread, specifically in point number 1 under "known issues". -
Thanks for pointing that out, I'd missed that. But to be clear, the issue I'm raising is not point number 1 ("Samtools does not write header "SO" tag"), but rather that Samtools doesn't change an existing "SO" tag after sorting, which results in an incorrect value for the the tag. I hope the author finds the time to correct this.Comment
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I believe the author was referring to both writing AND updating the SO tag with his statement.Comment
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CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).
Despite this, “CRISPR helped turn genome editing from a specialized technique into...07-31-2026, 11:01 AM
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