org.snpeff.nextProt.NextProtXmlEntry

public class NextProtXmlEntry extends NextProtXmlNode

Mimics the 'entry' in a NextProt XML file

Constructor Details
- NextProtXmlEntry
  
  public NextProtXmlEntry(String accession, NextProtHandler handler)
Method Details
- add
  
  public void add(NextProtXmlAnnotation ann)
  
  Add an annotation
- addIsoformSequence
  
  public void addIsoformSequence(String isoformAccession, String sequence)
  
  Add an Isoform sequence
- addMarkers
  
  public void addMarkers(NextProtMarkerFactory markersFactory)
  
  Create all Markers for this entry
- getAnnotations
  
  public List<NextProtXmlAnnotation> getAnnotations()
- getHandler
  
  public NextProtHandler getHandler()
- getIdentifiers
  
  public Set<org.snpeff.nextProt.Identifier> getIdentifiers()
- getIsoform
  
  public NextProtXmlIsoform getIsoform(String isoformAccession)
  
  Get or create an isoform
- getIsoformsByAccession
  
  public Map<String,NextProtXmlIsoform> getIsoformsByAccession()
- getOrCreateIsoform
  
  public NextProtXmlIsoform getOrCreateIsoform(String isoformAccession)
- toString
  
  public String toString()
  
  Overrides:
  
  toString in class Object

Class NextProtXmlEntry

Constructor Summary