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CNV calling on tumor sample with no germline counterpart

Dear all,

please would you recommend the algorithms/software that perform CNV calling on WGS data of TUMOR sample with NO GERMLINE counterpart ? Many thanks,

-- bogdan

cnv
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updated by Eric T. Eric T. • written by Bogdan Bogdan

I personally use Delly2, which seems to work well (I'm working on haploid fungi)

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written by guillaume.rbt guillaume.rbt

hi,have you tried canvas? thanks a lot.

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written by linouhao • linouhao

1 answer

Canvas and CNVkit can do it.

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written by Eric T. Eric T.

thank you Eric, it is very informative ;)

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written by Bogdan Bogdan

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