Nearest neighbours

[katherinef]

Hello,

Can I ask a very naïve question? The CLAMMS documentation states: "CLAMMS collects seven QC metrics for each sample and performs a fast k-nearest neighbors search algorithm". However, as far as I can tell CLAMMS does not do this automatically as part of the model building or CNV calling steps. Does the user have to generate these QC metrics (using Picard) and identify nearest neighbours themselves based on the example protocol provided?

Thanks

Kath