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Any techniques faster than Breakdancer?

I have been using Breakdancer for structural variant detection, but it is running so slow, which takes more than 30 hours for a pair of tumor/normal samples as to WGS data. Are there any other methods which can do similar stuff but run faster? Thanks,

sv dna breakdancer structural variant

That's what I want to find in this link, a compile of SV caller packages. Thanks a lot natasha.

1 answer

Yes: try LUMPY or Manta.

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