triplex (version 1.12.0)

triplex.group.table: Get default isogroup tables

Description

The triplex.group.table function returns default isogroup tables for parallel and antiparallel triplex types.

Usage

triplex.group.table()

Value

List of two matrixes, one for parallel triplex types and the other one for antiparallel.

Details

This function is used by triplex.search function to get default isogroup tables. These tables correspond exactly with Table 1 published in (Lexa, 2011) and they represent the isomorphic groups of triplets.

As a common triplet structure is H.WC:WC, to customize isogroup tables just use H as a row index, WC as a column index, then set desired group number and pass such modified tables through group_table option of triplex.search interface.

References

Lexa, M., Martinek, T., Burgetova, I., Kopecek, D., Brazdova, M.: A dynamic programming algorithm for identification of triplex-forming sequences, In: Bioinformatics, Vol. 27, No. 18, 2011, Oxford, GB, p. 2510-2517, ISSN 1367-4803

See Also

triplex.score.table triplex.search, TriplexViews, triplex.diagram, triplex.3D, triplex.alignment

Examples

triplex.group.table()