Support for PureCN for estimating purity/ploidy

[lbeltrame]

Description of feature

As the subject says, PureCN is a software for calling copy number and variants after estimating tumor purity and ploidy. In our experience it performs better than ASCAT with low-purity(< 40%) samples.

A typical PureCN analysis involves creating a panel of normals (PoN) which is then used as a reference to estimate purity/ploidy and from there CNV and SNV. Currently there are no modules in nf-core to use PureCN (however it's in bioconda), so these would need to be done first.

I'm posting this to enquire whether there is interest, as if so, we are considering implementing this support ourselves.

cc @LMannarino @aldosr @rikizad

[maxulysse]

thanks a lot for the suggestion, adding this in the list: #95

[peterkilfeather]

Would be very keen to have support for PureCN

[FriederikeHanssen]

@lbeltrame is working on it :) @maxulysse btw might be another interesting candidate for nf-core/createpanelref

[lbeltrame]

Yes, more or less. Don't hold your breath, though. ;)