ExplicitRepresentation-class: Explicit Representation Dense and Sparse Classes
In kebabs: Kernel-Based Analysis Of Biological Sequences

Description Details Slots Author(s) References

Explicit Representation Dense and Sparse Classes

In KeBABS this class is the virtual parent class for explicit representations generated from a set of biological sequences for a given kernel. The derived classes ExplicitRepresentationDense and ExplicitRepresentationSparse are meant to hold explicit representations in dense or sparse format. The kernel used to generate the explicit representation is stored together with the data.

Instances of this class are used for storing explicit representations in dense matrix format. This class is derived from ExplicitRepresentation.

Instances of this class are used for storing explicit representations in sparse dgRMatrix format. This class is derived from ExplicitRepresentation.

usedKernel: kernel used for generating the explicit representation
quadratic: boolean indicating a quadratic explicit representation

Johannes Palme <kebabs@bioinf.jku.at>

http://www.bioinf.jku.at/software/kebabs

J. Palme, S. Hochreiter, and U. Bodenhofer (2015) KeBABS: an R package for kernel-based analysis of biological sequences. Bioinformatics, 31(15):2574-2576, 2015. DOI: 10.1093/bioinformatics/btv176.

kebabs documentation built on Nov. 8, 2020, 7:38 p.m.