The significance of amplification or deletion of a specific gene in the tumor DNA was estimated by comparing the tumor normalized coverage to the distribution of normal normalized coverage at this gene for all patients, using the R function pnorm.
To illustrate the functional coverage of UniFam, the distributions of the EC number assignment to UniFam families were plotted for UniFam_Euk (see Additional file 10A) and UniFam_Prok (see Additional file 10B).
Secondly, our relatively broad distribution of trapping sites over the island provided better coverage of the heterogeneous distribution of the disease, which was found to have much higher prevalences in Moramanga, Toliara and Mahajanga than elsewhere.
This sampling design provided coverage of the entire distribution of BMI in the population with a 100-fold relative over-sampling of the obese, in order to allow particular focus on obesity and related aspects.
Latin Hypercube Sampling (LHS) is an efficient means of sampling and combining parameters to generate a collection of K sample parameter sets, which gives coverage of the entire distribution for each parameter (see e.g. [ 5]).
The results obtained from questions bordering on knowledge of the respondents about LLIN, the extent of coverage of the net distribution campaign as well as ownership and source of LLIN showed that ninety-six percent of the respondents have heard about LLIN while the remaining 4% had not (Table 2).
To analyse the effect of GC composition on uniformity of read coverage we calculated the distribution of GC of mapped reads to the reference, normalized by the average coverage across each set of replicate, and compared them against the theoretical distribution.
The variance of the data below this midpoint was calculated, and 2 x standard deviation was added to the midpoint to reach the background cutoff level. 2 x SD results in 95% coverage of the assumed normal distribution of the background expression the gene.
Validation of the model performance was done on the test locations (the remaining 15% of the data) The predictive ability of the model was assessed by specifically calculate different credible intervals with different probability coverage of the posterior predictive distribution and compare the percentage of test locations correctly predicted within these credible intervals (52).
