Uses of Interface
org.forester.util.DescriptiveStatistics
Packages that use DescriptiveStatistics
Package
Description
-
Uses of DescriptiveStatistics in org.forester.archaeopteryx.phylogeny.data
Methods in org.forester.archaeopteryx.phylogeny.data with parameters of type DescriptiveStatisticsModifier and TypeMethodDescriptionstatic RenderableVectorRenderableVector.createInstance(List<Double> values, DescriptiveStatistics stats, Configuration configuration) -
Uses of DescriptiveStatistics in org.forester.msa
Methods in org.forester.msa that return DescriptiveStatisticsModifier and TypeMethodDescriptionstatic DescriptiveStatisticsMsaMethods.calcBasicGapinessStatistics(Msa msa) static final DescriptiveStatisticsMsaMethods.calcNumberOfGapsStats(Msa msa) static final DescriptiveStatisticsMsaMethods.calculateEffectiveLengthStatistics(Msa msa) static final DescriptiveStatisticsMsaMethods.calculateIdentityRatio(int from, int to, Msa msa) -
Uses of DescriptiveStatistics in org.forester.pccx
Constructors in org.forester.pccx with parameters of type DescriptiveStatisticsModifierConstructorDescriptionExternalNodeBasedCoverage(DescriptiveStatistics stats, double average_raw_score, CoverageCalculationOptions options) -
Uses of DescriptiveStatistics in org.forester.phylogeny
Methods in org.forester.phylogeny that return DescriptiveStatisticsModifier and TypeMethodDescriptionstatic DescriptiveStatisticsPhylogenyMethods.calculateBranchLengthStatistics(Phylogeny phy) static DescriptiveStatisticsPhylogenyMethods.calculateNumberOfDescendantsPerNodeStatistics(Phylogeny phy) Methods in org.forester.phylogeny that return types with arguments of type DescriptiveStatisticsModifier and TypeMethodDescriptionstatic List<DescriptiveStatistics>PhylogenyMethods.calculateConfidenceStatistics(Phylogeny phy) -
Uses of DescriptiveStatistics in org.forester.surfacing
Methods in org.forester.surfacing that return DescriptiveStatisticsModifier and TypeMethodDescriptionstatic DescriptiveStatisticsSurfacingUtil.calculateDescriptiveStatisticsForMeanValues(Set<DomainSimilarity> similarities) DomainLengths.calculateMeanBasedStatistics()Returns descriptive statistics based on the arithmetic means for each species.DomainLengthsTable.calculateMeanBasedStatisticsForAllSpecies()DomainLengthsTable.calculateMeanBasedStatisticsForDomain(String domain_id) DomainLengthsTable.calculateMeanBasedStatisticsForSpecies(Species species) DomainLengths.getLengthStatistic(Species species) DomainLengthsTable.getLengthStatistic(String domain_id, Species species) BasicGenomeWideCombinableDomains.getPerGenomeDomainPromiscuityStatistics()GenomeWideCombinableDomains.getPerGenomeDomainPromiscuityStatistics()This should return a statistic for per domain promiscuity in a genome.Methods in org.forester.surfacing that return types with arguments of type DescriptiveStatisticsMethods in org.forester.surfacing with parameters of type DescriptiveStatisticsModifier and TypeMethodDescriptionstatic voidSurfacingUtil.domainsPerProteinsStatistics(String genome, List<Protein> protein_list, DescriptiveStatistics all_genomes_domains_per_potein_stats, SortedMap<Integer, Integer> all_genomes_domains_per_potein_histo, SortedSet<String> domains_which_are_always_single, SortedSet<String> domains_which_are_sometimes_single_sometimes_not, SortedSet<String> domains_which_never_single, Writer writer) -
Uses of DescriptiveStatistics in org.forester.util
Classes in org.forester.util that implement DescriptiveStatisticsConstructors in org.forester.util with parameters of type DescriptiveStatistics