Class PrincipalComponentAnalysis

java.lang.Object
ubic.gemma.model.common.AbstractIdentifiable
ubic.gemma.model.common.AbstractDescribable
ubic.gemma.model.analysis.Analysis
ubic.gemma.model.analysis.expression.ExpressionAnalysis
ubic.gemma.model.analysis.SingleExperimentAnalysis
ubic.gemma.model.analysis.expression.pca.PrincipalComponentAnalysis
All Implemented Interfaces:
gemma.gsec.model.Securable, gemma.gsec.model.SecuredChild, Securable, SecuredChild, Describable, Identifiable
public class PrincipalComponentAnalysis extends SingleExperimentAnalysis

  • Constructor Details

    • PrincipalComponentAnalysis

      public PrincipalComponentAnalysis()

  • Method Details

    • getBioAssayDimension

      public BioAssayDimension getBioAssayDimension()

    • setBioAssayDimension

      public void setBioAssayDimension(BioAssayDimension bioAssayDimension)

    • getEigenValues

      public Set<Eigenvalue> getEigenValues()

    • setEigenValues

      public void setEigenValues(Set<Eigenvalue> eigenValues)

    • getEigenVectors

      public Set<Eigenvector> getEigenVectors()

    • setEigenVectors

      public void setEigenVectors(Set<Eigenvector> eigenVectors)

    • getMaxNumProbesPerComponent

      public Integer getMaxNumProbesPerComponent()
      Returns:
      How many probe loadings were stored per component (max).

    • setMaxNumProbesPerComponent

      public void setMaxNumProbesPerComponent(Integer maxNumProbesPerComponent)

    • getNumComponentsStored

      public Integer getNumComponentsStored()
      Returns:
      How many components results are stored for (e.g. 3)

    • setNumComponentsStored

      public void setNumComponentsStored(Integer numComponentsStored)

    • getProbeLoadings

      public Set<ProbeLoading> getProbeLoadings()

    • setProbeLoadings

      public void setProbeLoadings(Set<ProbeLoading> probeLoadings)

    • getEigenvectorArrays

      public List<Double[]> getEigenvectorArrays() throws IllegalArgumentException
      Returns:
      Convenience method to access the eigenvectors, as a List of Double[].
      Throws:
      IllegalArgumentException

    • getVarianceFractions

      public double[] getVarianceFractions()
      Returns:
      An array of values representing the fraction of the variance each component accounts for. Convenience method to access the Eigenvalue data.

    • equals

      public boolean equals(Object object)
      Description copied from class: AbstractIdentifiable
      Important note: Two objects with the same class and non-null ID must be considered equal. If one or both IDs are nulls, the rest of the state can be used to determine equality.
      Specified by:
      equals in class AbstractIdentifiable