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java.lang.Objectpal.coalescent.IntervalsExtractor
public class IntervalsExtractor
A series of coalescent intervals representing the time order information contained in a (serial) clock-constrained tree.
Field Summary |
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Fields inherited from interface pal.misc.Units |
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DAYS, EXPECTED_SUBSTITUTIONS, GENERATIONS, MONTHS, SAMPLE, SHORT_UNIT_NAMES, UNIT_NAMES, UNKNOWN, YEARS |
Constructor Summary | |
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IntervalsExtractor()
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Method Summary | |
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static CoalescentIntervals |
extractFromClockTree(Tree tree)
extracts intervals from clock tree. |
static CoalescentIntervals |
extractFromClockTree(Tree tree,
double minSize)
extracts intervals from clock tree. |
static CoalescentIntervals |
extractFromTree(Tree tree)
extracts intervals from serial clock tree. |
static CoalescentIntervals |
extractFromTree(Tree tree,
MutationRateModel muModel)
extracts intervals in generation times from serial clock tree (in mutation times) after taking into account mutation rate model. |
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 IntervalsExtractor()
Method Detail |
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public static CoalescentIntervals extractFromClockTree(Tree tree)
public static CoalescentIntervals extractFromClockTree(Tree tree, double minSize)
public static CoalescentIntervals extractFromTree(Tree tree, MutationRateModel muModel)
public static CoalescentIntervals extractFromTree(Tree tree)
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