calculateConc: Target copies estimation

In popPCR: Classify Digital PCR Droplets by Fitting Fluorescence Populations

Description

Mean target copies per partition (lambda) is derived using Poisson distribution as lambda = -ln(nneg / ntot). Target copies in sample is then calculated as conc = lambda * volSamp/(volDrp * 1000).

Usage

calculateConc(nneg, ntotal, volSamp, volDrp)

Arguments

nneg	numeric, negative droplet count
ntotal	numeric, total droplet count
volSamp	numeric, sample volume in microliter
volDrp	numeric, droplet (or partition) volume in nanoliter

Value

Returns a list with 2 named items lambda and conc

• lambda - numeric, vector of mean target copies per partition (lambda) and its lower and upper 95% confidence interval

• conc - numeric, vector of target copies in sample (based on the given sample volume (volSamp) and droplet volume (volDrp)) and its lower and upper 95% confidence interval

Examples

estimates <- calculateConc(5000, 20000, volSamp = 20, volDrp = 0.85)
estimates
#    Output:
#       $lambda
#          lambda     lower      upper
#       1.386294   1.362289   1.410299
#
#       $conc
#           conc      lower      upper
#       32618.69   32053.87   33183.51

popPCR documentation built on March 10, 2021, 1:08 a.m.