palCon-class {cosmo}R Documentation

Class "palCon" ~~~

Description

This class defines a global constraint when palindromic patterns are known to be found in the motif.

Objects from the Class

Objects can be created by calls of the form new('palCon',
int1 = ...., # Object of class numeric
int2 = ...., # Object of class numeric
errBnd = ...., # Object of class numeric
) or by: makePalCon(
int1 = ...., # Object of class numeric
int2 = ...., # Object of class numeric
errBnd = ...., # Object of class numeric
)

Slots

int1:
Object of class "numeric" first palindromic interval
int2:
Object of class "numeric" second palindromic interval
errBnd:
Object of class "numeric" error tolerated in mismatches

Methods

No methods defined with class "palCon" in the signature.

Note

~~further notes~~

Author(s)

Fabian Gallusser, fgallusser@berkeley.edu

See Also

shapeCon, subMotifCon, posFreqCon, boundCon, shapeDiffCon makeConSet

Examples

set=makeConSet(3,c("B","V","B"),c(4,NA,4))
palcon=makePalCon(1,3,0.5)
set=addCon(set,list(palcon),NA)

[Package cosmo version 1.8.0 Index]