forsearch-package {forsearch}R Documentation

Diagnostic Analysis Using Forward Search Procedure for Various Models Diagnostic Analysis Using Forward Search Procedure for Various Models

Description

Identifies potential data outliers and their impact on estimates and analyses. Uses the forward search approach of Atkinson and Riani, "Robust Diagnostic Regression Analysis", 2000,<ISBN: o-387-95017-6> to prepare descriptive statistics of a dataset that is to be analyzed by stats::lm(), stats::glm(), stats::nls(), nlme::lme() or survival::coxph(). Includes graphics functions to display the descriptive statistics.

Details

The DESCRIPTION file:

Package: forsearch
Title: Diagnostic Analysis Using Forward Search Procedure for Various Models
Version: 6.2.0
Authors@R: person("William","Fairweather", email = "wrf343@flowervalleyconsulting.com", role = c("aut", "cre"))
Description: Identifies potential data outliers and their impact on estimates and analyses. Uses the forward search approach of Atkinson and Riani, "Robust Diagnostic Regression Analysis", 2000,<ISBN: o-387-95017-6> to prepare descriptive statistics of a dataset that is to be analyzed by stats::lm(), stats::glm(), stats::nls(), nlme::lme() or survival::coxph(). Includes graphics functions to display the descriptive statistics.
Depends: R (>= 4.2)
License: GPL (>= 3)
LazyData: true
SystemRequirements: gmp (>= 4.1)
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
Imports: Hmisc(>= 4.7-0), Cairo(>= 1.6-0), formula.tools(>= 1.7.0), ggplot2(>= 3.4.0), nlme(>= 3.1-157), survival(>= 3.4), tibble(>= 3.1.8)
Suggests: rmarkdown, knitr
VignetteBuilder: knitr
Author: William Fairweather [aut, cre]
Maintainer: William Fairweather <wrf343@flowervalleyconsulting.com>

Index of help topics:

aStep1                  Create Set of Observation Numbers in Step 1 for
                        Linear Model Analysis
aStep2                  Update Observation Set in Step 2
bStep1                  Create Set of Observation Numbers in Step 1 for
                        Linear Mixed Effects Model Analysis
bStep2                  Update Observation Numbers in Step 2
cStep1                  Create Set of Observation Numbers in Step 1 for
                        Cox Proportional Hazards Model Analysis
cStep2                  Update Observation Set in Step 2
forsearch-package       Diagnostic Analysis Using Forward Search
                        Procedure for Various Models Diagnostic
                        Analysis Using Forward Search Procedure for
                        Various Models
forsearch_cph           Create Statistics Of Forward Search in a Cox
                        Proportional Hazard Database
forsearch_glm           Create Statistics of Forward Search in a
                        Generalized Linear Model Database
forsearch_lm            Create Statistics Of Forward Search in a Linear
                        Model Database
forsearch_lme           Create Statistics Of Forward Search For a
                        Linear Mixed Effects Database
forsearch_nls           Create Statistics Of Forward Search in a
                        Nonlinear Model Database
identifyCoeffs          Index To Identify Fixed and Random Coefficients
                        To Appear Together on Plot
identifyFixedCoeffs     Index To Identify Fixed Coefficients To Appear
                        Together on Plot
picksome                Structured Sets of Random Samples of
                        Observations
plotdiag.AICX           Plot Diagnostic AIC Statistics
plotdiag.ANOX2          Plot Diagnostic Statistics of Analysis of
                        Variance Tables
plotdiag.Cook           Plot Diagnostic Statistics of Modified Cook's
                        Distance
plotdiag.Wald           Plot Diagnostic Statistics of Wald Test Output
                        of COXPH Function
plotdiag.allgraphs      Execute All Plotting Functions For a Select
                        Forsearch Object
plotdiag.blind.fixed    Plot Diagnostic Statistics of Fixed
                        Coefficients for Blinded Dataset
plotdiag.deviance.residuals
                        Plot Diagnostic Statistics Of Deviance
                        Residuals
plotdiag.deviances      Plot Diagnostic Deviance Statistics
plotdiag.fit3           Plot Diagnostic Statistics of AIC, BIC, and Log
                        Likelihood
plotdiag.leverage       Plot Diagnostic Statistics Of Leverage
plotdiag.loglik         Plot Diagnostic Statistics of LOGLIK Output of
                        COXPH Function
plotdiag.lrt            Plot Diagnostic Statistics of Likelihood Ratio
                        Test of COXPH Function
plotdiag.params.fixed   Plot Diagnostic Statistics of Fixed
                        Coefficients
plotdiag.params.random
                        Plot Diagnostic Statistics Of Random
                        Coefficients
plotdiag.phihatx        Plot Diagnostic PhiHat Statistics
plotdiag.residuals      Plot Diagnostic Statistics Of Residuals Or
                        Squared Residuals
plotdiag.s2             Plot Diagnostic Statistics Of Residual
                        Variation
plotdiag.tstats         Plot Diagnostic T Statistics
search.history          Create Tabular History Of Forward Search
showme                  Display Abbreviated Output of FORSEARCH_xxx
                        Function
variablelist            Identify Level(s) to Which Each Factor
                        Observation Belongs

Ensure that data frame has a leading column of observation numbers. Run forsearch_xxx to create a file of diagnostic statistics to be used as input to such plotting functions as plotdiag.residuals, plotdiag.params.fixed, plotdiag.params.random, plotdiag.s2, plotdiag,leverage, and plotdiag.Cook. The file of diagnostic statistics can be voluminous, and the utility function showme displays the output more succinctly. Plotting of statistics for fixed and for random coefficients is limited by graphical restraints in some cases. The function identifyCoeffs provides a set of indexing codes so that plotdiag.params.random can display diagnostics for selected fixed or random model parameters. The function identifyFixedCoeffs does the same for lm models.

Author(s)

William R. Fairweather, Flower Valley Consulting, Inc., Silver Spring MD USA NA

Maintainer: NA William R. Fairweather <wrf343 at flowervalleyconsulting.com>

References

Atkinson, A and M Riani. Robust Diagnostic Regression Analysis, Springer, New York, 2000. Pinheiro, JC and DM Bates. Mixed-Effects Models in S and S-Plus, Springer, New York, 2000.


[Package forsearch version 6.2.0 Index]