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## Package edu.msu.cme.rdp.classifier.rrnaclassifier

Provides classes for reading training information and classifying sequence.

See:
Description

Class Summary
ClassificationResult | This class holds the classification results for a query sequence.
ClassificationResultFormatter |
Classifier | This is the class to do the classification.
ClassifierCmd | This is the command line class to do the classification.
ClassifierFactory | A factory to create a classifier with the training information defined by the property file.
ClassifierTest | A test class for Classifier.
GenusWordConditionalProb | A GenusWordConditionalProb holds the index of the genus node, and the conditional probability that genus node contains the word.
GenusWordProbFileParser | A parser to parse a reader containing a list of the indices of genus nodes and the conditional probabilities that genus nodes contains the words.
HierarchyTree | A HierarchyTree holds the taxonomic information of a taxon.
HierarchyTreeTest | A test class for HierarchyTree.
HierarchyVersion | A HierarchyVersion holds the training set number and version of the taxonomy.
LogWordPriorFileParser | A parser to parse a read containing a list of the indices of words and the log value of word prior probabilities.
ProbIndexFileParser | A parser to parser a reader contains a list of indices of words, and start indices of the conditional probabilities.
RankAssignment | A RankAssignment holds the classification result of a sequence at one rank level.
TrainingInfo | The TrainingInfo holds all the training information and taxonomy hierarchy information.
TrainingInfoTest | A test class for TrainingInfo.
TreeFileParser | A parser to parse a reader containing taxonomic training information.
TreeFileParserTest | A test class for TreeFileParser.

Enum Summary
ClassificationResultFormatter.FORMAT |

Exception Summary
ShortSequenceException | Handles exception for a short sequence.
TrainingDataException | Handles the exception occurred when parsing training information.

## Package edu.msu.cme.rdp.classifier.rrnaclassifier Description

Provides classes for reading training information and classifying sequence.

These classes are capable of reading training information from a property file and classifying a sequence. This package contains three main groups of classes:

- Classes for parsing the traing information.
- Classes for sequence classification.
- Classes for holding classification result.

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