palCon-class {cosmo} | R Documentation |
This class defines a global constraint when palindromic patterns are known to be found in the motif.
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
)
int1
:"numeric"
first palindromic interval int2
:"numeric"
second palindromic interval errBnd
:"numeric"
error tolerated in mismatchesNo methods defined with class "palCon" in the signature.
~~further notes~~
Fabian Gallusser, fgallusser@berkeley.edu
shapeCon
, subMotifCon
, posFreqCon
, boundCon
, shapeDiffCon
makeConSet
set=makeConSet(3,c("B","V","B"),c(4,NA,4)) palcon=makePalCon(1,3,0.5) set=addCon(set,list(palcon),NA)