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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. |
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:
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