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Packages that use IBioLocus | |
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org.metaqtl | |
org.metaqtl.adapter | |
org.metaqtl.algo | |
org.metaqtl.factory | |
org.metaqtl.main | |
org.metaqtl.util | |
org.thalia.bio | |
org.thalia.bio.entity | |
org.thalia.bio.util |
Uses of IBioLocus in org.metaqtl |
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Methods in org.metaqtl with parameters of type IBioLocus | |
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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 |
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Methods in org.metaqtl.adapter that return IBioLocus | |
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static IBioLocus |
QtlAdapter.fromQTL(Qtl qtl)
This method converts a Qtl into an object which class
implements the IBioLocus |
Methods in org.metaqtl.adapter with parameters of type IBioLocus | |
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static Qtl |
QtlAdapter.toQTL(IBioLocus locus)
This method converts an object which class implements the IBioLocus |
Uses of IBioLocus in org.metaqtl.algo |
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Constructors in org.metaqtl.algo with parameters of type IBioLocus | |
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MetaMapAlgorithm(IBioGenome[] maps,
IBioGenome skeleton,
IBioLocus[] dubious,
MetaDico mrkDico)
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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.factory |
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Methods in org.metaqtl.factory that return IBioLocus | |
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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 |
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Methods in org.metaqtl.main that return IBioLocus | |
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protected static IBioLocus[] |
MetaMain.getDubious(java.lang.String dubFile)
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Uses of IBioLocus in org.metaqtl.util |
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Methods in org.metaqtl.util with parameters of type IBioLocus | |
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static int |
LocusProperties.getMetaOccurence(IBioLocus locus)
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static boolean |
LocusProperties.isDubiousOrderLocus(IBioLocus locus)
Returns true if the given locus has a property order.dubious set to one, false otherwise |
Uses of IBioLocus in org.thalia.bio |
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Methods in org.thalia.bio that return IBioLocus | |
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IBioLocus |
IBioAllele.getLocus()
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IBioLocus |
IBioLGroup.getLocus(java.lang.String name)
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IBioLocus[] |
IBioLGroup.loci()
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Methods in org.thalia.bio with parameters of type IBioLocus | |
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void |
IBioLGroup.addLocus(IBioLocus locus)
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void |
IBioLGroup.setLoci(IBioLocus[] loci)
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void |
IBioAllele.setLocus(IBioLocus locus)
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Uses of IBioLocus in org.thalia.bio.entity |
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Classes in org.thalia.bio.entity that implement IBioLocus | |
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class |
AlleleContainer
Class Description Here |
class |
Locus
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class |
Marker
Class Description Here |
class |
QTL
Class Description Here |
Fields in org.thalia.bio.entity declared as IBioLocus | |
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static IBioLocus[] |
IBioConstants.EMPTY_BIOLOCUS_ARRAY
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Methods in org.thalia.bio.entity that return IBioLocus | |
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IBioLocus |
LocusContainer.getLocus(java.lang.String name)
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IBioLocus[] |
LocusContainer.loci()
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Methods in org.thalia.bio.entity with parameters of type IBioLocus | |
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void |
LocusContainer.addLocus(IBioLocus locus)
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void |
LocusContainer.setLoci(IBioLocus[] loci)
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Uses of IBioLocus in org.thalia.bio.util |
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Methods in org.thalia.bio.util that return IBioLocus | |
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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.thalia.bio.util with parameters of type IBioLocus | |
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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 |
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