Spock                   Poset and pattern/lambda data
base2IndVec             base2IndVec
base2Indexing           base2Indexing
bcbn                    B-CBN
ctcbn                   CT-CBN
ctcbnSingle             CT-CBN Single Batch
edgeMarginalized        edgeMarginalized
generateData            Generate Data
generateMatrixGenotypes
                        generateMatrixGenotypes
generateTCGAMatrix      Generate TCGA Genotype Matrix
genotypeFeasibility     genotypeFeasibility
genotypeMatrixMutator   genotypeMatrixMutator
getExamples             Get paths to examples
getRawTCGAData          Get Raw TCGA Data
hcbn                    H-CBN
hcbnSingle              H-CBN Single Batch
jensenShannonDivergence
                        jensenShannonDivergence
pathEdgeMapper          pathEdgeMapper
pathNormalization       pathNormalization
pathProbCBN             pathProbCBN: quantifies pathway probabilities
                        using the output of CT-CBN or H-CBN
pathProbQuartetBCBN     pathProbQuartetBCBN
pathProbQuartetCTCBN    pathProbQuartetCTCBN
pathProbQuartetHCBN     pathProbQuartetHCBN
pathProbQuartetRCBN     pathProbQuartetRCBN
pathProbSSWM            pathProbSSWM
pathwayCompatibilityQuartet
                        pathwayCompatibilityQuartet
pathwayFeasibility      pathwayFeasibility
pathwayGenotypeCompatibility
                        pathwayGenotypeCompatibility
pathwayWeightingRCBN    pathwayWeightingRCBN
permutations            permutations
posetWeightingRCBN      posetWeightingRCBN
predictability          predictability
readLambda              Read a .lambda file
readPattern             Read a .pat file
readPoset               Read a .poset file
readTime                Read a .time file
transitiveClosure       Transitive Closure
visualizeCBNModel       Visualize CBN Model
visualizeFitnessLandscape
                        Visualize Fitness Landscape
visualizeProbabilities
                        Visualize Pathway Probabilities
