Variance Component Analysis


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Documentation for package ‘VCA’ version 1.2.1

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VCA-package (V)ariance (C)omponent (A)nalysis.
anovaDF ANOVA Type-I Degrees of Freedom.
anovaMM ANOVA-Type Estimation of Mixed Models.
anovaVCA ANOVA-Type Estimation of Variance Components for Random Models.
as.matrix.VCA Standard 'as.matrix' Method for 'VCA' S3-Objects.
buildList Build a Nested List.
CA19_9 Reproducibility Example Dataset from CLSI EP05-A3
chol2invData Dataset Generating Error in Function 'chol2inv'
coef.VCA Extract Fixed Effects from 'VCA' Object.
Csweep Calling C-implementation of the SWEEP-Operator
dataEP05A2_1 Simulated Data of a CLSI EP05-A2 20/2/2 Experiment
dataEP05A2_2 Simulated Data of a CLSI EP05-A2 20/2/2 Experiment
dataEP05A2_3 Simulated Data of a CLSI EP05-A2 20/2/2 Experiment
dataEP05A3_MS_1 Simulated Data of a CLSI EP05-A3 3/5/5 Multi-Site Experiment
dataEP05A3_MS_2 Simulated Data of a CLSI EP05-A3 3/5/5 Multi-Site Experiment
dataEP05A3_MS_3 Simulated Data of a CLSI EP05-A3 3/5/5 Multi-Site Experiment
dataRS0003_1 Simulated Repeated Measurements Data.
dataRS0003_2 Simulated Repeated Measurements Data.
dataRS0003_3 Simulated Repeated Measurements Data.
dataRS0005_1 Simulated Data of 5/3 Experiment.
dataRS0005_2 Simulated Data of 5/3 Experiment.
dataRS0005_3 Simulated Data of 5/3 Experiment.
DfSattHelper Variance-Covariance Matrix of Fixed Effects as Function of Covariance Parameter Estimates.
fixef Generic Method for Extracting Fixed Effects from a Fitted Model.
fixef.VCA Extract Fixed Effects from 'VCA' Object.
getAmatrix Determine A-Matrix.
getCmatrix Coefficient Matrix for (V)ariance (C)omponent (A)nalysis.
getDDFM Degrees of Freedom for Testing Linear Contrast of Fixed Effects and Least Square Means.
getDF Extract Degrees of Freedom from Linear Hypotheses of Fixed Effects or LS Means.
getL Construct Linear Contrast Matrix for Hypothesis Tests.
getMat Extract a Specific Matrix from a 'VCA' Object.
getMM Overparameterized Design Matrices.
getSSQqf ANOVA Sum of Squares via Quadratic Forms
getSSQsweep ANOVA Sum of Squares via Sweeping.
getV Determine V-Matrix for a 'VCA' Object.
getVCvar Covariance-Matrix of Variance Components.
Glucose Inermediate Precision Data from CLSI EP05-A3
HugeData Huge Dataset with Three Variables
isBalanced Check Whether Design Is Balanced Or Not.
lsmeans Least Squares Means of Fixed Effects.
lsmMat Contrast Matrix for LS Means.
MPinv Moore-Penrose Inverse of a Matrix.
Orthodont Orthodont dataset from R-package 'nlme'
plotRandVar Plot Random Variates of a Mixed Model ('VCA' Object).
print.VCA Standard Printing Method for Objects of Class 'VCA'.
print.VCAinference Standard Print Method for Objects of Class 'VCAinference'.
ranef Generic Method for Extracting Random Effects from a Fitted Model.
ranef.VCA Extract Random Effects from 'VCA' Object.
realData Real-World Data
resid Extract Residuals of a 'VCA' Object.
residuals.VCA Extract Residuals of a 'VCA' Object.
SattDF Satterthwaite Approximation for Total Degrees of Freedom and for Single Variance Components.
Sinv Calling C-implementation of the SWEEP-Operator for Matrix-Inversion
sleepstudy sleepstudy dataset from R-package 'lme4'
Solve Solve System of Linear Equations using Inverse of Cholesky-Root.
solveMME Solve Mixed Model Equations.
stepwiseVCA Bottom-Up Step-Wise VCA-Analysis of the Complete Dataset.
test.fixef Perform t-Tests for Linear Contrasts on Fixed Effects.
test.lsmeans Perform t-Tests for Linear Contrasts on LS Means.
Trace Compute the Trace of a Matrix.
varPlot Variability Chart for Hierarchical Models.
VCA (V)ariance (C)omponent (A)nalysis.
VCAdata1 Simulated Data for Variance Component Analysis.
VCAinference Inferential Statistics for VCA-Results.
vcov.VCA Calculate Variance-Covariance Matrix of Fixed Effects for an 'VCA' Object.
vcovFixed Calculate Variance-Covariance Matrix and Standard Errors of Fixed Effects for an 'VCA' Object.
vcovVC Calculate Variance-Covariance Matrix of Variance Components of 'VCA' objects.