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SV detection software using split reads only?

Hi,

Is anyone aware of a SV detection software which uses split read information only to make its calls (i.e. not using discordant pairs)?

Any help would be appreciated.

Thanks,

David

genome
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updated by xingyu • xingyu • written by david.kovalic • david.kovalic

Maybe start with this review, section "split-read approaches".

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written by ATpoint ATpoint

Important to specify the technology you are using

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written by WouterDeCoster WouterDeCoster

First I answered assuming that he is using any long read technology, but from the question

discordant pairs

I assume he is using paired end reads

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written by Medhat Medhat

If you subset the Delly output to SV calls with the INFO:PRECISE flag then all these SVs are supported by split read information.

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written by trausch trausch

1 answer

Pindel version1 utilizes split read to detect SV.

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written by xingyu • xingyu

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