Package calhoun.analysis.crf.test

Class Summary

BasicStatsTest
CacheProcessorTest
CacheProcessorTestRealShort
CacheTest
ConstraintTest
ConstraintTest.FixedEdges	Edge class used for testing that favors changing states whenever possible.
CRFIOTest
CRFTest
ExampleTrees
FeatureTest
FileInputHandlerTest
FunctionEvalTest
GammaDistributionsTest
GapConjunctionFeaturesTest
GeneConstraintsInterval13Test	Tests that CRF is working with valid probabilities - the sum of all possible labelings is 1.
GeneConstraintsToy	Implements basic constraints on gene calls. 1) Intergenic - start must occur at ATG 2) Splice sites must be canonical GT/AG or GC/AG 3) Exon-stop must be followed by a start codon
GTFWriterTest
Interval13BaselineTest
Interval13FeatureTest
Interval29BaselineTest
Interval29FeatureTest
LBFGSTest
LogprobLookupTest	Tests that CRF is working with valid probabilities - the sum of all possible labelings is 1.
MatrixOperationsTest
MaxentMotifModelTest
MaximumExpectedAccuracyTest
MultipleSequenceTest
NewickTreeManipulationTest
NonGradientTest
PredictedActualBinaryContingencyTableTest
RangeMapExamples
RealIOTest
RecyclingBufferTest
ReferenceBasePredictorTest	Tests that CRF is working with valid probabilities - the sum of all possible labelings is 1.
SemiMarkovTest
SequenceConverterTest
TestFeatures
TestFeatures.EmissionFeature
TestFeatures.ExplicitHalfExponentialLengthFeature
TestFeatures.ExponentialLengthFeature
TestFeatures.GaussianLengthFeature
TestFeatures.HalfExponentialLengthFeature
TestFeatures.TestFeature
ValidPathsTest	Tests that CRF is working with valid probabilities - the sum of all possible labelings is 1.
ZeroOrderManager
ZeroOrderModel