Bootstrapping, Box-Cox transformations and robust regression were performed in R (version 2.10.1).
The predictive performances of the risk models (developed using standard regression, backwards elimination, ridge, and lasso) were assessed using bootstrap validation (box 2).
2 Typically, the model is validated internally (for example, using bootstrapping 7 in box 2) or externally using patient data not used for model development (box 1).
In the case of Boxed Ice, Boxed ice is bootstrapping, it's profitable, decided that it doesn't want to raise that much capital at the moment.
The plotted ROC (Fig. 2c) curve is the vertical average of the 500 bootstrapping runs, and the boxes and whiskers plot the vertical spread around the average.
The results are summarized in Table 2 and the distribution of the estimated dN/dS, dN, and dS from the bootstrap analyses are shown as box plots in Figure 1.
Two α-proteobacterial sequences are nested within the other eukaryotic priS sequences in box A with weak bootstrap support, which could indicate an origin via endosymbiotic gene transfer.
Phylogenetic analysis was then completed using a maximum likelihood approach and rapid bootstrapping algorithm within RAxML v 7.2.8 Black Box (Stamatakis 2006; Stamatakis et al. 2008), on the Cipres web portal (Miller et al. 2010).
Table 2 and Figure 2 show descriptive statistics (mean, standard deviation, and confidence interval) and box plots, respectively, of the bootstrap distribution of Spearman correlations.
The separation from other eukaryotes in box A appear robust with strong bootstrap support from both of the analyses with all taxa, as well as an additional analysis where the box B sequences and prokaryotic long branches were excluded (Additional File 5).
Associated with each gene, the appropriate averages of 1,000 bootstrap replicates for the 5 computed statistics produced a box plot that disclosed variation in gene expression.
