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E(C), the expectation of coverage area of sensor nodes, i.e., μ. σ2, the variance of coverage area of sensor nodes.
Based on the observed median and variance of coverage, we excluded contigs with less than 2× coverage and greater than 10× coverage, as well as contigs less than 300 bp in length, from the analyzed V. destructor assembly.
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However, there is a growing number of data sets whose variance of the coverage distribution is clearly greater than the mean coverage [ 4, 10].
In particular, note that the variance of full coverage (100%) is much smaller in our model.
The variance of gene coverage was reduced by 300 fold in Candida albicans.
In theory, this assumption entails an equality between the mean and the variance of the coverage distribution.
Recall that the negative binomial approximation approaches the Poisson distribution when r → ∞, i.e. when the mean and variance of the coverage spectrum are equal.
Regions with the highest variance of FAIRE-seq coverare arexpecteded to correlate with the position of the TSS, due to the coupling between the patterns of nucleosome occupancy and positioning preference of the transcription initiation complex.
First, we define the functional window of a gene as the nucleosome-sized region within 1000 bp upstream of the start codon (regions containing promoters) with the highest variance of FAIRE-seq coveracrossross the seven time points (see Figure 2 for an example).
Finally, the proposed association method is evaluated with a realistic scenario and is analyzed to show the stability of the proposed method according to degree of the discrepancy between approximated and actual identification sensor coverage, variance of actual identification sensor coverage, and tracking performance.
Differences between these two estimates of the variance, in terms of coverage rates for confidence intervals of point estimates, are investigated further in the Simulated Data section.
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