A B C D E F G H I L M N P R S T U V W X

F

FASTAParser - Class in procope.methods.interologs

Reads sequences in (multi-)FASTA format.

feedData(float, float) - Method in interface procope.tools.math.CorrelationCoefficient

Feeds one data point into the dataset

feedData(Collection<Point>) - Method in interface procope.tools.math.CorrelationCoefficient

Feeds a list of data points into the dataset.

feedData(Point) - Method in interface procope.tools.math.CorrelationCoefficient

Feeds one data point into the dataset

feedData(Collection<Point>) - Method in class procope.tools.math.PearsonCoefficient

feedData(Point) - Method in class procope.tools.math.PearsonCoefficient

feedData(float, float) - Method in class procope.tools.math.PearsonCoefficient

feedData(float, float) - Method in class procope.tools.math.SpearmanCoefficient

feedData(Collection<Point>) - Method in class procope.tools.math.SpearmanCoefficient

feedData(Point) - Method in class procope.tools.math.SpearmanCoefficient

findBestIndex(ArrayList<BootstrapClusterings>) - Static method in class procope.methods.scores.bootstrap.Bootstrap

Finds the index of the clusterings with the best average efficiency in the set.

findMax(Collection<Integer>) - Static method in class procope.tools.Tools

Returns the maximum of a given integer collection.

footer() - Method in class procope.data.XGMMLWriter

Prints the XGMML footer

FULL_LIB_NAME - Static variable in class procope.tools.Tools

Full program string assembled from libary name and version

FunctionalSimilarities - Class in procope.evaluation.complexquality.go

This class is extended by classes which calculate a semantic similarity score of two given proteins based on GO information.

FunctionalSimilarities() - Constructor for class procope.evaluation.complexquality.go.FunctionalSimilarities

FunctionalSimilaritiesSchlicker - Class in procope.evaluation.complexquality.go

Implements the calculation of functional similarites between proteins as described in

FunctionalSimilaritiesSchlicker(GONetwork, GOAnnotations, TermSimilarities, FunctionalSimilaritiesSchlicker.FunctionalSimilarityMeasure) - Constructor for class procope.evaluation.complexquality.go.FunctionalSimilaritiesSchlicker

Creates a new functional similarity score calculator.

FunctionalSimilaritiesSchlicker.FunctionalSimilarityMeasure - Enum in procope.evaluation.complexquality.go

Functional semilarity measure.