2018
Decoupling Combinatorial Complexity: a Two-Step Approach to Distributions of Runs
Kong Y. Decoupling Combinatorial Complexity: a Two-Step Approach to Distributions of Runs. Methodology And Computing In Applied Probability 2018, 21: 789-803. DOI: 10.1007/s11009-018-9689-1.Peer-Reviewed Original ResearchRun-related distributionsDistribution of runsMultivariate random sequencesCombinatorial complexityFinite Markov chainsMulti-object systemNearest-neighbor interactionsStatistical physicsCombinatorial difficultiesMarkov chainExplicit formRun statisticsNeighbor interactionsMultinomial coefficientsDifferent systematic approachesGeneral frameworkRun distributionRandom sequenceKinds of objectsTwo-step approachCombinatoricsGeneral formulaIndependent stepsComplexityPhysicsGenerating Function Methods for Run and Scan Statistics
Kong Y. Generating Function Methods for Run and Scan Statistics. 2018, 1-19. DOI: 10.1007/978-1-4614-8414-1_56-1.Peer-Reviewed Original ResearchFinite Markov chainsMulti-object systemNearest-neighbor interactionsStatistical physicsCombinatorial difficultiesGenerating functionMarkov chainExplicit formClassical resultsPattern statisticsNeighbor interactionsCombinatorial complexityFunction methodCombinatorial methodsKinds of objectsDifferent complexityMultiple objectsScan statisticIndividual objectsStatisticsIndependent stepsFirst stepWhole systemComplexityObjects
2009
Integrating Sequencing Technologies in Personal Genomics: Optimal Low Cost Reconstruction of Structural Variants
Du J, Bjornson RD, Zhang ZD, Kong Y, Snyder M, Gerstein MB. Integrating Sequencing Technologies in Personal Genomics: Optimal Low Cost Reconstruction of Structural Variants. PLOS Computational Biology 2009, 5: e1000432. PMID: 19593373, PMCID: PMC2700963, DOI: 10.1371/journal.pcbi.1000432.Peer-Reviewed Original ResearchConceptsDifferent read lengthsDifferent technologiesSemi-realistic simulationComputational complexityMaximum accuracyAssembly algorithmReconstruction efficiencySimulation toolboxPersonal genomicsAccurate detectionLow costChallenging stepTechnologyCostAlgorithmAccurate assemblyComplexitySmall enough scalesReconstructionGoalIndividual genomesCanonical problemImportant goalToolboxSimulations
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