Class SequenceAsStringHelper<C extends Compound>


  • 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
    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      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: