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Packages that use SecondaryStructureData | |
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startup | |
util.io | |
util.secondaryStructure |
Uses of SecondaryStructureData in startup |
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Methods in startup with parameters of type SecondaryStructureData | |
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java.io.File |
ClassificationAction.getFeaturesTrainingData(java.lang.String fileName,
java.util.List<java.lang.String> sequences,
SecondaryStructureData ssData,
Classifier classifier,
Classifier.DATA_TYPE data_type)
This method extracts the features from a trainingfile (positive/negative), and stores the extracted features into the feature_output_file. |
Uses of SecondaryStructureData in util.io |
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Methods in util.io that return SecondaryStructureData | |
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SecondaryStructureData |
FileParser.extractRandomSecondaryStructuresFromFile(java.lang.String fileName,
int number)
Extracts a given amount of secondary structure data from a given file. |
SecondaryStructureData |
FileParser.extractSecondaryStructuresFromFile(java.lang.String fileName)
Extracts the secondarystructure data from a file, according to the way it was written in the file by RNAfold. |
Uses of SecondaryStructureData in util.secondaryStructure |
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Methods in util.secondaryStructure that return SecondaryStructureData | |
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SecondaryStructureData |
SecondaryStructureExtraction.extractStructures(java.lang.String sequence,
java.util.List<java.lang.Integer> locations,
java.lang.String outputDirectory,
int maxUp,
int maxDown)
This method extracts the actual secondary structures from the sequence, given by the list of possible splicesites. |
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