Last year I posted about the Lander-Waterman equation used to calculate the number of reads needed to sequence a sample. I explained that this general equation (C = LN/G) can be rearranged to allow you to compute the number of reads (N) to sequence a genome of known size (G) with specific coverage (C) and using reads of a specified length (L). Today I finally finished my Calculoid NGS reads calculator to make it easier to access..feel free to use and reuse as you see fit.
Nice one,
ReplyDeleteHave you thought about a calculator for targeted sequencing experiments
(replace genome size with target capture region size and add a factor for off-target reads).
E.g. assume 80% on-target fraction on a 1MB region with 500x Coverage and PE100:
N = (Coverage * TargetSize) / (Readlength * Offtargetfraction)
N = (500 * 1Mbp ) / (200 * 0.8)
N = 3.125 M reads
That's how we calculate our targeted experiments...