BinaryAlphabet: The BinaryAlphabet class

In phylosim: Flexible Simulations of Biological Sequence Evolution

Description

Class of Alphabet objects with the c("0","1") symbol set.

Package:
Class BinaryAlphabet

Object
~~|
~~+--PSRoot
~~~~~~~|
~~~~~~~+--Alphabet
~~~~~~~~~~~~|
~~~~~~~~~~~~+--BinaryAlphabet

Directly known subclasses:

public static class BinaryAlphabet
extends Alphabet

Usage

BinaryAlphabet(...)

Arguments

...

Not used.

Fields and Methods

Methods:
No methods defined.

Methods inherited from Alphabet:
!=, ==, as.character, checkConsistency, getSize, getSymbolLength, getSymbols, getType, getWriteProtected, hasSymbols, is, isEmpty, setSize, setSymbolLength, setSymbols, setType, summary

Methods inherited from PSRoot:
checkConsistency, enableVirtual, getComments, getMethodsList, globalConsistencyCheck, intersect.list, is, is.na, ll, my.all.equal, plot, setComments, setMethodsList, summary, virtualAssignmentForbidden

Methods inherited from Object:
$, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, names, objectSize, print, save

Author(s)

Botond Sipos, Gregory Jordan

See Also

Alphabet

Examples

	# create a binary alphabet
	b<-BinaryAlphabet()
	# get alphabet summary
	summary(b)
 

phylosim documentation built on Nov. 22, 2019, 1:07 a.m.