Uses of Package
pal.util

Packages that use pal.util
pal.algorithmics   
pal.alignment Classes dealing with sequence alignments, including methods for reading and printing in several possible formats, as well as rearranging and concatenating. 
pal.coalescent Classes to model population genetic processes using the coalescent. 
pal.distance Classes for reading and generating distance matrices, including computation of pairwise distances for sequence data (maximum-likelihood and observed distances). 
pal.misc Classes that don't fit elsewhere ;^) 
pal.statistics Classes with useful for statistics (normal distribution, Gamma distribution, chi-square distribution, exponential distribution, likelihood-ratio test, chi-square test, descriptive statistics, bootstrap estimators etc.) 
pal.substmodel Classes describing substitution models, i.e. 
pal.supgma   
pal.tree Classes for providing the data structure of trees, for constructing and modifying trees, and for parameterizing trees (e.g., clock constraint). 
pal.treesearch   
pal.util Utility classes for sorting etc. 
pal.xml Utility classes for converting PAL objects to and from XML documents. 
 

Classes in pal.util used by pal.algorithmics
AlgorithmCallback
           
 

Classes in pal.util used by pal.alignment
AlgorithmCallback
           
 

Classes in pal.util used by pal.coalescent
AlgorithmCallback
           
 

Classes in pal.util used by pal.distance
AlgorithmCallback
           
 

Classes in pal.util used by pal.misc
Comparable
          interface for an object that is comparable.
 

Classes in pal.util used by pal.statistics
AlgorithmCallback
           
 

Classes in pal.util used by pal.substmodel
DoubleKeyCache
           
XMLConstants
          constants (strings and numbers) relating to reading and writing XML.
 

Classes in pal.util used by pal.supgma
AlgorithmCallback
           
 

Classes in pal.util used by pal.tree
AlgorithmCallback
           
 

Classes in pal.util used by pal.treesearch
AlgorithmCallback
           
 

Classes in pal.util used by pal.util
AlgorithmCallback
           
Comparable
          interface for an object that is comparable.
Comparator
          interface for an object that can compare other objects for the purposes of ordering them.
DoubleKey
           
DoubleKeyCache
           
Logger
          Interface for all objects that provide a logging facility.
 

Classes in pal.util used by pal.xml
XMLConstants
          constants (strings and numbers) relating to reading and writing XML.