Uses of Interface
org.expasy.mzjava.core.ms.spectrasim.SimFunc

Packages that use SimFunc

Package	Description
org.expasy.mzjava.core.ms.cluster
org.expasy.mzjava.core.ms.library
org.expasy.mzjava.core.ms.spectrasim

Uses of SimFunc in org.expasy.mzjava.core.ms.cluster

Methods in org.expasy.mzjava.core.ms.cluster with parameters of type SimFunc

Modifier and Type	Method and Description
static <A extends PeakAnnotation,S extends PeakList<A>> SimilarityGraph<S>	PeakListSimGraphFactory.build(List<S> spectra, SimFunc<A,A> simFunc, Tolerance precursorTolerance, double scoreThreshold) Build a new DenseSimilarityGraph
static <A extends PeakAnnotation,S extends PeakList<A>,G extends SimilarityGraph<S>> G	PeakListSimGraphFactory.build(List<S> spectra, SimilarityGraphBuilder<S,G> builder, SimFunc<A,A> simFunc, Tolerance precursorTolerance, double scoreThreshold) Build a new SimilarityGraph

Constructors in org.expasy.mzjava.core.ms.cluster with parameters of type SimFunc

Constructor and Description
SpectrumClusterEvaluator(Tolerance tolerance, SimFunc<A,A> simFunc, ClusterBuilder<S> clusterBuilder)

Uses of SimFunc in org.expasy.mzjava.core.ms.library

Constructors in org.expasy.mzjava.core.ms.library with parameters of type SimFunc

Constructor and Description
SimFuncProcedure(QPL queryPeakList, SimFunc<LA,QA> simFunc, int capacity)

Uses of SimFunc in org.expasy.mzjava.core.ms.spectrasim

Classes in org.expasy.mzjava.core.ms.spectrasim that implement SimFunc

Modifier and Type	Class and Description
class	AbstractSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Abstract similarity function.
class	DpSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Calculates the similarity between two PeakLists using the dot product (dp).
class	McNdpSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Calculates PeakList similarity using the Mean Centered Normalized Dot Product similarity function Olson et.al..
class	NdpSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Calculates the similarity between two PeakLists using the normalized dot product (ndp).
class	PearsonsSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Calculates PeakList similarity using the Pearson's correlation coefficient.
class	PspcSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Poisson shared peak count similarity function.
class	SharedPeakSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> The shared peak count is the calculated using the formula
class	WeightedPearsonsSimFunc<X extends PeakAnnotation,Y extends PeakAnnotation> Calculates PeakList similarity using the weighted Pearson's correlation coefficient.