org.biojava3.core.sequence.storage
Class SequenceAsStringHelper<C extends Compound>

java.lang.Object
  org.biojava3.core.sequence.storage.SequenceAsStringHelper<C>

public class SequenceAsStringHelper<C extends Compound>
extends java.lang.Object

This is a common method that can be used across multiple storage/proxy implementations to handle Negative strand and other interesting elements of sequence data.

Author:

Scooter Willis

Constructor Summary

SequenceAsStringHelper()

Method Summary

java.lang.String

getSequenceAsString(java.util.List<C> parsedCompounds, CompoundSet<C> compoundSet, java.lang.Integer bioBegin, java.lang.Integer bioEnd, Strand strand)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SequenceAsStringHelper

public SequenceAsStringHelper()

Method Detail

getSequenceAsString

public java.lang.String getSequenceAsString(java.util.List<C> parsedCompounds,
                                            CompoundSet<C> compoundSet,
                                            java.lang.Integer bioBegin,
                                            java.lang.Integer bioEnd,
                                            Strand strand)

Parameters:

parsedCompounds -

compoundSet -

bioBegin -

bioEnd -

strand -

Returns: