public class ConservednessMetric
extends java.lang.Object
Constructor and Description |
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ConservednessMetric() |
Modifier and Type | Method and Description |
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java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getCombinedBasePatternAlphabetConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getCombinedBasePatternAlphabetNonDuplicateConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getCombinedPatternAlphabetConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getCombinedPatternAlphabetNonDuplicateConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getMaximalRepeatBasePatternAlphabetConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getMaximalRepeatBasePatternAlphabetNonDuplicateConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getMaximalRepeatPatternAlphabetConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getMaximalRepeatPatternAlphabetNonDuplicateConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getTandemArrayBasePatternAlphabetConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getTandemArrayBasePatternAlphabetNonDuplicateConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getTandemArrayPatternAlphabetConservednessMap() |
java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> |
getTandemArrayPatternAlphabetNonDuplicateConservednessMap() |
void |
printMetrics() |
void |
setCombinedBasePatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedBasePatternAlphabetConservednessMap) |
void |
setCombinedBasePatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedBasePatternAlphabetNonDuplicateConservednessMap) |
void |
setCombinedPatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedPatternAlphabetConservednessMap) |
void |
setCombinedPatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedPatternAlphabetNonDuplicateConservednessMap) |
void |
setMaximalRepeatBasePatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatBasePatternAlphabetConservednessMap) |
void |
setMaximalRepeatBasePatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatBasePatternAlphabetNonDuplicateConservednessMap) |
void |
setMaximalRepeatPatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatPatternAlphabetConservednessMap) |
void |
setMaximalRepeatPatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatPatternAlphabetNonDuplicateConservednessMap) |
void |
setTandemArrayBasePatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayBasePatternAlphabetConservednessMap) |
void |
setTandemArrayBasePatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayBasePatternAlphabetNonDuplicateConservednessMap) |
void |
setTandemArrayPatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayPatternAlphabetConservednessMap) |
void |
setTandemArrayPatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayPatternAlphabetNonDuplicateConservednessMap) |
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getCombinedPatternAlphabetConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getCombinedPatternAlphabetNonDuplicateConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getCombinedBasePatternAlphabetConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getCombinedBasePatternAlphabetNonDuplicateConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getTandemArrayPatternAlphabetConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getTandemArrayPatternAlphabetNonDuplicateConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getTandemArrayBasePatternAlphabetConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getTandemArrayBasePatternAlphabetNonDuplicateConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getMaximalRepeatPatternAlphabetConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getMaximalRepeatPatternAlphabetNonDuplicateConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getMaximalRepeatBasePatternAlphabetConservednessMap()
public java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> getMaximalRepeatBasePatternAlphabetNonDuplicateConservednessMap()
public void setCombinedPatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedPatternAlphabetConservednessMap)
public void setCombinedPatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedPatternAlphabetNonDuplicateConservednessMap)
public void setCombinedBasePatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedBasePatternAlphabetConservednessMap)
public void setCombinedBasePatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> combinedBasePatternAlphabetNonDuplicateConservednessMap)
public void setTandemArrayPatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayPatternAlphabetConservednessMap)
public void setTandemArrayPatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayPatternAlphabetNonDuplicateConservednessMap)
public void setTandemArrayBasePatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayBasePatternAlphabetConservednessMap)
public void setTandemArrayBasePatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> tandemArrayBasePatternAlphabetNonDuplicateConservednessMap)
public void setMaximalRepeatPatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatPatternAlphabetConservednessMap)
public void setMaximalRepeatPatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatPatternAlphabetNonDuplicateConservednessMap)
public void setMaximalRepeatBasePatternAlphabetConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatBasePatternAlphabetConservednessMap)
public void setMaximalRepeatBasePatternAlphabetNonDuplicateConservednessMap(java.util.Map<java.util.TreeSet<java.lang.String>,java.lang.Integer> maximalRepeatBasePatternAlphabetNonDuplicateConservednessMap)
public void printMetrics()