Uses of Interface
org.metaqtl.bio.IBioLocus

Packages that use IBioLocus
org.metaqtl   
org.metaqtl.adapter   
org.metaqtl.algo   
org.metaqtl.bio   
org.metaqtl.bio.entity   
org.metaqtl.bio.util   
org.metaqtl.factory   
org.metaqtl.main   
org.metaqtl.util   
 

Uses of IBioLocus in org.metaqtl
 

Methods in org.metaqtl with parameters of type IBioLocus
 void Chromosome.attachQTL(IBioLocus[] qtls)
          Add
 boolean ChromCluster.isDubiousLocus(IBioLocus locus)
          If a list of dubious markers has been set before then this routine checks if the given locus is not included into this list.
 void ChromCluster.setDubiousMarker(IBioLocus[] dubious)
          This method sets the list of dubious marker.
 void MapCluster.setDubiousMarker(IBioLocus[] dubious)
          This method sets the list of dubious marker.
 

Uses of IBioLocus in org.metaqtl.adapter
 

Methods in org.metaqtl.adapter that return IBioLocus
static IBioLocus QtlAdapter.fromQTL(Qtl qtl)
          This method converts a Qtl into an object which class implements the IBioLocus interface.
 

Methods in org.metaqtl.adapter with parameters of type IBioLocus
static Qtl QtlAdapter.toQTL(IBioLocus locus)
          This method converts an object which class implements the IBioLocus interface into a Qtl.
 

Uses of IBioLocus in org.metaqtl.algo
 

Constructors in org.metaqtl.algo with parameters of type IBioLocus
MetaMapAlgorithm(IBioGenome[] maps, IBioGenome skeleton, IBioLocus[] dubious, MetaDico mrkDico)
           
QtlProjAlgorithm(IBioGenome[] maps, IBioGenome skeleton, IBioLocus[] dubious)
          Creates a new instance of QtlProjAlgorithm for the given configuration of projection.
 

Uses of IBioLocus in org.metaqtl.bio
 

Methods in org.metaqtl.bio that return IBioLocus
 IBioLocus IBioAllele.getLocus()
           
 IBioLocus IBioLGroup.getLocus(java.lang.String name)
           
 IBioLocus[] IBioLGroup.loci()
           
 

Methods in org.metaqtl.bio with parameters of type IBioLocus
 void IBioLGroup.addLocus(IBioLocus locus)
           
 void IBioLGroup.setLoci(IBioLocus[] loci)
           
 void IBioAllele.setLocus(IBioLocus locus)
           
 

Uses of IBioLocus in org.metaqtl.bio.entity
 

Classes in org.metaqtl.bio.entity that implement IBioLocus
 class AlleleContainer
          Class Description Here
 class Locus
           
 class Marker
          Class Description Here
 class QTL
          Class Description Here
 

Fields in org.metaqtl.bio.entity declared as IBioLocus
static IBioLocus[] IBioConstants.EMPTY_BIOLOCUS_ARRAY
           
 

Methods in org.metaqtl.bio.entity that return IBioLocus
 IBioLocus LocusContainer.getLocus(java.lang.String name)
           
 IBioLocus[] LocusContainer.loci()
           
 

Methods in org.metaqtl.bio.entity with parameters of type IBioLocus
 void LocusContainer.addLocus(IBioLocus locus)
           
 void LocusContainer.setLoci(IBioLocus[] loci)
           
 

Uses of IBioLocus in org.metaqtl.bio.util
 

Methods in org.metaqtl.bio.util that return IBioLocus
static IBioLocus[] BioLocusTypes.extractLocus(IBioLocus[] loci, int type)
          This returns extracts in the given array of loci the locus which type matches the given one.
static IBioLocus[] BioUtilities.sortLociByPosition(IBioLocus[] loci)
          Sort tab with loci
 

Methods in org.metaqtl.bio.util with parameters of type IBioLocus
static IBioLocus[] BioLocusTypes.extractLocus(IBioLocus[] loci, int type)
          This returns extracts in the given array of loci the locus which type matches the given one.
static IBioLocus[] BioUtilities.sortLociByPosition(IBioLocus[] loci)
          Sort tab with loci
 

Uses of IBioLocus in org.metaqtl.factory
 

Methods in org.metaqtl.factory that return IBioLocus
static IBioLocus[] DubiousLocusFactory.read(java.io.Reader reader)
          This routine reads the list of dubious markers from the given file location and returns if succeed an array of IBioLocus objects.
 

Uses of IBioLocus in org.metaqtl.main
 

Methods in org.metaqtl.main that return IBioLocus
protected static IBioLocus[] MetaMain.getDubious(java.lang.String dubFile)
           
 

Uses of IBioLocus in org.metaqtl.util
 

Methods in org.metaqtl.util with parameters of type IBioLocus
static int LocusProperties.getMetaOccurence(IBioLocus locus)
           
static boolean LocusProperties.isDubiousOrderLocus(IBioLocus locus)
          Returns true if the given locus has a property order.dubious set to one, false otherwise