meshi.sequences
Class ResidueAlignmentOfModels

java.lang.Object
  java.util.AbstractCollection<E>
      java.util.AbstractList<E>
          java.util.ArrayList<ResidueAlignmentColumn>
              meshi.sequences.ResidueAlignment
                  meshi.sequences.ResidueAlignmentOfModels

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable, java.lang.Iterable<ResidueAlignmentColumn>, java.util.Collection<ResidueAlignmentColumn>, java.util.List<ResidueAlignmentColumn>, java.util.RandomAccess

public class ResidueAlignmentOfModels
extends ResidueAlignment

Residue alignment of multiple protein objects, all representing the same protein. Thus, they all have identicle residues up to gaps. The alignment includes only the residues that exists in all models.

See Also:

Serialized Form

Field Summary

Fields inherited from class meshi.sequences.ResidueAlignment

comments

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

ResidueAlignmentOfModels(Protein[] proteins)

Method Summary

private boolean	allHasNext(java.util.Iterator[] iterators)
java.lang.String	toString()

Methods inherited from class meshi.sequences.ResidueAlignment

add, filter, getCaList, insert

Methods inherited from class java.util.ArrayList

add, addAll, addAll, clear, clone, contains, ensureCapacity, get, indexOf, isEmpty, lastIndexOf, remove, remove, removeRange, set, size, toArray, toArray, trimToSize

Methods inherited from class java.util.AbstractList

equals, hashCode, iterator, listIterator, listIterator, subList

Methods inherited from class java.util.AbstractCollection

containsAll, removeAll, retainAll

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.util.List

containsAll, equals, hashCode, iterator, listIterator, listIterator, removeAll, retainAll, subList

Constructor Detail

ResidueAlignmentOfModels

public ResidueAlignmentOfModels(Protein[] proteins)

Method Detail

allHasNext

private boolean allHasNext(java.util.Iterator[] iterators)

toString

public java.lang.String toString()

Overrides:

toString in class ResidueAlignment