In the data set selected for the experiments, no instance belonging to novel class was declared as existing class instance in the data set and very few instances belonging to existing class were declared as novel class instance.
No false assignments and no missing assignments for the existing classes were recorded (precision 100%).
To ensure that obkData objects are readily compatible with other R packages, existing classes have been used for storing data whenever possible: the class 'DNAbin' for DNA sequences (Paradis et al., 2004), the classes ' network' and ' networkDynamic' for contact data (Butts, 2008), and the class ' phylo' for phylogenetic trees (Paradis et al., 2004).
The DUL ontology offers seamless extensibility, since both PaaS Characteristics and parameters are defined as classes; therefore, extending the ontology with new characteristics and parameters requires the addition of new specialized subclasses of the already existing classes, which is less complicated than adding ontology properties.
New material on supercomputing is integrated into existing classes if it is taught at all.
As new antiretroviral drugs in existing drug classes are developed to improve upon antiviral potency or to limit in vivo toxicity, direct comparisons of the existing drug and the new drug in single SCID-hu mouse cohorts represent a powerful preclinical tool for the prediction of improved efficacy in human patients.
All code is written in R (R Development Core Team, 2009) and existing Biobase classes are used to store the data.
The presented strategy does not classify the novel class instance as existing class, but is not able to handle feature evolution effectively.
The placement of most classes in the networks analysis was generally consistent with both the concatenated and the concordance analyses, and revealed that: (1) Protocruzia was in a position that is separate from all existing classes, and; (2) Myrionecta was grouped with Tiarina which represent the class Prostomatea, as same as the result indicated in maximum likelihood tree.
Class extensions offer a convenient way to incrementally modify existing classes when subclassing is inappropriate.
