Description Usage Details Value Note Author(s) References See Also Examples

View source: R/triplex.table.R

The `triplex.group.table`

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

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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.

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

If you modify the isogroup tables,
you should consider changing also default P-value constants (`lambda`

,
`mu`

and `rn`

), because these are valid just for the default isogroup tables.

Tomas Martinek, Jiri Hon

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

`triplex.score.table`

`triplex.search`

,
`TriplexViews`

,
`triplex.diagram`

,
`triplex.3D`

,
`triplex.alignment`

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