public class ChainClusterer
extends java.lang.Object
Constructor and Description |
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ChainClusterer(java.util.List<SequenceAlignmentCluster> seqClusters) |
Modifier and Type | Method and Description |
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java.util.List<javax.vecmath.Point3d[]> |
getCalphaCoordinates() |
java.util.List<Atom[]> |
getCalphaTraces() |
java.util.List<java.lang.String> |
getChainIds() |
java.util.List<java.lang.Integer> |
getFolds()
Get valid symmetry order for this stoichiometry.
|
java.util.List<java.lang.Double> |
getMaxSequenceIdentity() |
java.util.List<java.lang.Double> |
getMinSequenceIdentity() |
java.util.List<java.lang.Integer> |
getModelNumbers() |
java.util.List<java.lang.Boolean> |
getPseudoStoichiometry() |
java.util.List<SequenceAlignmentCluster> |
getSequenceAlignmentClusters() |
int |
getSequenceClusterCount() |
java.util.List<java.lang.Integer> |
getSequenceClusterIds() |
java.lang.String |
getStoichiometry() |
static java.util.List<java.lang.Integer> |
getValidFolds(java.util.List<java.lang.Integer> stoichiometry)
Find valid symmetry orders for a given stoichiometry.
|
java.lang.String |
toString() |
public ChainClusterer(java.util.List<SequenceAlignmentCluster> seqClusters)
public java.util.List<javax.vecmath.Point3d[]> getCalphaCoordinates()
public java.util.List<Atom[]> getCalphaTraces()
public java.util.List<java.lang.String> getChainIds()
public java.util.List<java.lang.Integer> getModelNumbers()
public java.lang.String getStoichiometry()
public java.util.List<java.lang.Integer> getFolds()
public static java.util.List<java.lang.Integer> getValidFolds(java.util.List<java.lang.Integer> stoichiometry)
stoichiometry
- List giving the number of copies in each chain clusterpublic java.util.List<java.lang.Integer> getSequenceClusterIds()
public int getSequenceClusterCount()
public java.util.List<SequenceAlignmentCluster> getSequenceAlignmentClusters()
public java.util.List<java.lang.Boolean> getPseudoStoichiometry()
public java.util.List<java.lang.Double> getMinSequenceIdentity()
public java.util.List<java.lang.Double> getMaxSequenceIdentity()
public java.lang.String toString()
toString
in class java.lang.Object