Package ubic.basecode.math.linearmodels

Class LeastSquaresFitTest

java.lang.Object
ubic.basecode.math.linearmodels.LeastSquaresFitTest
public class LeastSquaresFitTest extends Object
Author:
paul

  • Constructor Details

    • LeastSquaresFitTest

      public LeastSquaresFitTest()

  • Method Details

    • testLSFOneContinuousWithMissing3

      public void testLSFOneContinuousWithMissing3() throws Exception
      Throws:
      Exception

    • testLSFThreeLevelsOnecontinous2

      public void testLSFThreeLevelsOnecontinous2() throws Exception
      Throws:
      Exception

    • testLSFThreeLevelsOneContinuousWithMissing3

      public void testLSFThreeLevelsOneContinuousWithMissing3() throws Exception
      Throws:
      Exception

    • testLSFTwoLevels

      public void testLSFTwoLevels() throws Exception
      Throws:
      Exception

    • testLSFTwoLevels2

      public void testLSFTwoLevels2() throws Exception
      Many missing values; Two factors, two levels + interaction.
      Throws:
      Exception

    • testLSFTwoLevels3

      public void testLSFTwoLevels3() throws Exception
      Throws:
      Exception

    • testLSFTwoLevelsOneContinuous

      public void testLSFTwoLevelsOneContinuous() throws Exception
      Throws:
      Exception

    • testMatrixWeightedRegress

      public void testMatrixWeightedRegress()
      Weighted least squares test for 2D matrices

    • testOneWayAnova

      public void testOneWayAnova() throws Exception
      Has a lot of missing values.
      Throws:
      Exception

    • testSingular

      public void testSingular() throws Exception
      Throws:
      Exception

    • testSingular2

      public void testSingular2() throws Exception
      Originally causes failures during summarization step. There are two pivoted columns.
      Throws:
      Exception

    • testThreeWaySingular

      public void testThreeWaySingular() throws Exception
      Throws:
      Exception

    • testTwoWayAnovaUnfittable

      public void testTwoWayAnovaUnfittable() throws Exception
      Sanity check.
      Throws:
      Exception

    • testTwoWayAnovaWithInteractions

      public void testTwoWayAnovaWithInteractions() throws Exception
      Check for problem reported by TF -- Gemma gives slightly different result. Problem is not at this level.
      Throws:
      Exception

    • testTwoWayTwoLevelsOneContinousInteractionC

      public void testTwoWayTwoLevelsOneContinousInteractionC() throws Exception
      No missing values; Two-way ANOVA with interaction, PLUS a continuous covariate.
      Throws:
      Exception

    • testVectorRegress

      public void testVectorRegress()

    • testVectorWeightedRegress

      public void testVectorWeightedRegress()

    • testVectorWeightedRegressWithMissing

      public void testVectorWeightedRegressWithMissing() throws Exception
      Throws:
      Exception

    • testNHBE

      public void testNHBE() throws Exception
      Tests limma-like functionality

      Multiple levels per factor, unbalanced design

      Throws:
      Exception

    • testEstrogen

      public void testEstrogen() throws Exception
      Tests limma-like functionality. Balanced 2x2 design
      Throws:
      Exception