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When and when not to use "repeat annotation mask" in 10X? #384

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denvercal1234GitHub opened this issue Dec 27, 2023 · 0 comments
Open

When and when not to use "repeat annotation mask" in 10X? #384

denvercal1234GitHub opened this issue Dec 27, 2023 · 0 comments

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@denvercal1234GitHub
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Hi there,

Thank you for the package.

Would anyone clarify when should we consider using the repeat annotation mask? And, whether it is a "soft" or "hard" masking?

In most papers, they ran velocyto without applying a repeat annotation mask, but in the tutorial, it says its inclusion could reduce confounding.

Thank you.
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