Specific types of BND

[hurleyLi]

Hi, could you please provide a script for converting BND svtype to specific SV types, e.g. DEL, DUP. I don't think the one in #4 is accurate. Thanks,

[Danisov]

I am also very interested. Did you find the solution?

[walaj]

Is this for germline or somatic rearrangement calling? If the latter, I would caution against converting to "DEL" "DUP" etc for reasons I can explain, and why I've never been excited about writing one (although others did which is fine). For germline, I haven't personally tested the script in #4 but it's essentially just doing a regexp to extract the four possibilities from the BND annotation, so could use/fix that or make your own pretty easily.

On Wed, Feb 23, 2022 at 10:23 AM Danisov @.***> wrote:

I am also very interested. Did you find the solution?

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