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java.lang.Objectorg.metaqtl.MapCluster
public class MapCluster
Constructor Summary | |
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MapCluster()
Creates a new instance of MapCluster . |
Method Summary | |
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void |
addAllMap(IBioGenome[] maps)
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void |
addChromosome(IBioLGroup group,
IBioCross crossDesign,
int mappingFunction,
int mappingUnit,
boolean rescale,
boolean skeleton)
Add a chromosome to the map cluster framework. |
void |
addMap(IBioGenome map,
boolean skeleton)
Add a map to the cluster. |
java.lang.String |
getChromosomeName(java.lang.String name)
This method returns the name of the chromosome from the given name. |
ChromCluster[] |
getClusters()
Returns the chromosome clusters. |
MetaDico |
getMarkerDico()
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void |
setDubiousMarker(IBioLocus[] dubious)
This method sets the list of dubious marker. |
void |
setMarkerDico(MetaDico mrkDico)
|
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public MapCluster()
MapCluster
.
Method Detail |
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public void addMap(IBioGenome map, boolean skeleton)
map
- the map to add.skeleton
- true if the chromosomes of this map must flagged as
the skeleton chromosomes.ChromCluster
,
ChromCluster.addChromosome(IBioLGroup, IBioCross, int, int, boolean, boolean)
public void addChromosome(IBioLGroup group, IBioCross crossDesign, int mappingFunction, int mappingUnit, boolean rescale, boolean skeleton)
group
- the chromosome.crossDesign
- the cross designmappingFunction
- the mapping function.mappingUnit
- the mapping unit.rescale
- true if the chromosome must be rescaledskeleton
- true if the chromosome is the skeleton chromosome.public java.lang.String getChromosomeName(java.lang.String name)
name
-
public ChromCluster[] getClusters()
addMap(IBioGenome, boolean)
.
Otherwise if any valid call has been done to this method
then the returned array will be null.
IBioGenome[] mymaps = ...;
MapCluster mapCluster = new MapCluster();
for(i=0;i
- Returns:
- an array of
ChromCluster
. - See Also:
ChromCluster
public void setDubiousMarker(IBioLocus[] dubious)
addMap(IBioGenome, boolean)
will
then taken into account this list.
dubious
- the array of dubious loci.ChromCluster.setDubiousMarker(IBioLocus[])
public MetaDico getMarkerDico()
public void setMarkerDico(MetaDico mrkDico)
mrkDico
- The mrkDico to set.public void addAllMap(IBioGenome[] maps)
maps
-
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