is there any R package to measure the efficiency of different exome capture kits?

Question

[jonessara770]

Hello,

I wonder if there is any R package or other software to allow comparing the efficiency of different exome capture kits by providing different metrics?

Thanks

Answer 1

[Noushin N]

If you can relax the requirement of being in R, you may want to check out calculateHsMetrics from Picard. It extracts metrics (including what you mention) from target-capture sequencing experiments and may get the job done.