Ensembl Model v1.09
© Roslin Institute 2010. GNU General Public License, version3
uk.ac.roslin.ensembl.model.compara
Class HomologyAlignmentProperties
java.lang.Object
uk.ac.roslin.ensembl.model.compara.HomologyAlignmentProperties
- All Implemented Interfaces:
- Serializable
public class HomologyAlignmentProperties
- extends Object
- implements Serializable
Utility class used to hold properties of an aligned homology object (gene)
in a HomologyPairRelationship. The compara database doesnt hold enough info
to instantiate objects fully.
Because a DAHomologyPairRelationship is typically instantiated from the
compara databases - the target gene in particular is likely to not
be a core-datasource aware object, and therefore species & and mapping details
are only simple fields grabbed from compara: these are held in properties
objects
- Author:
- tpaterso
- See Also:
- Serialized Form
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
HomologyAlignmentProperties
public HomologyAlignmentProperties()
getCigarEnd
public Integer getCigarEnd()
setCigarEnd
public void setCigarEnd(Integer cigarEnd)
getCigarLine
public String getCigarLine()
setCigarLine
public void setCigarLine(String cigarLine)
getCigarStart
public Integer getCigarStart()
setCigarStart
public void setCigarStart(Integer cigarStart)
getGeneID
public String getGeneID()
setGeneID
public void setGeneID(String geneID)
getPeptideID
public String getPeptideID()
setPeptideID
public void setPeptideID(String peptideID)
getPercentCovered
public Integer getPercentCovered()
setPercentCovered
public void setPercentCovered(Integer percentCovered)
getPercentIdentity
public Integer getPercentIdentity()
setPercentIdentity
public void setPercentIdentity(Integer percentIdentity)
getPercentSimilar
public Integer getPercentSimilar()
setPercentSimilar
public void setPercentSimilar(Integer percentSimilar)
getSpeciesName
public String getSpeciesName()
setSpeciesName
public void setSpeciesName(String speciesName)
getSequenceName
public String getSequenceName()
setSequenceName
public void setSequenceName(String seqName)
getCoords
public Coordinate getCoords()
setCoords
public void setCoords(Coordinate coords)
Ensembl Model v1.09
© Roslin Institute 2010. GNU General Public License, version3