Preliminaries | Exam data | Residual analysis | Influence analysis | Diagnostics for variance components
Package: HLMdiag 0.5.1.9000
HLMdiag: Diagnostic Tools for Hierarchical (Multilevel) Linear Models
A suite of diagnostic tools for hierarchical (multilevel) linear models. The tools include not only leverage and traditional deletion diagnostics (Cook's distance, covratio, covtrace, and MDFFITS) but also convenience functions and graphics for residual analysis. Models can be fit using either lmer in the 'lme4' package or lme in the 'nlme' package.
Authors:
HLMdiag_0.5.1.9000.tar.gz
HLMdiag_0.5.1.9000.zip(r-4.7)HLMdiag_0.5.1.9000.zip(r-4.6)HLMdiag_0.5.1.9000.zip(r-4.5)
HLMdiag_0.5.1.9000.tgz(r-4.6-x86_64)HLMdiag_0.5.1.9000.tgz(r-4.6-arm64)HLMdiag_0.5.1.9000.tgz(r-4.5-x86_64)HLMdiag_0.5.1.9000.tgz(r-4.5-arm64)
HLMdiag_0.5.1.9000.tar.gz(r-4.7-arm64)HLMdiag_0.5.1.9000.tar.gz(r-4.7-x86_64)HLMdiag_0.5.1.9000.tar.gz(r-4.6-arm64)HLMdiag_0.5.1.9000.tar.gz(r-4.6-x86_64)
HLMdiag_0.5.1.9000.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
HLMdiag/json (API)
| # Install 'HLMdiag' in R: |
| install.packages('HLMdiag', repos = c('https://aloy.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/aloy/hlmdiag/issues
Datasets:
Last updated from:6f1ee6dcba. Checks:13 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-arm64 | OK | 242 | ||
| linux-devel-x86_64 | OK | 271 | ||
| source / vignettes | OK | 405 | ||
| linux-release-arm64 | OK | 237 | ||
| linux-release-x86_64 | OK | 247 | ||
| macos-release-arm64 | OK | 193 | ||
| macos-release-x86_64 | OK | 384 | ||
| macos-oldrel-arm64 | OK | 149 | ||
| macos-oldrel-x86_64 | OK | 377 | ||
| windows-devel | OK | 227 | ||
| windows-release | OK | 215 | ||
| windows-oldrel | OK | 222 | ||
| wasm-release | OK | 197 |
Exports:adjust_lmListcase_deletecompare_eb_lscovratiocovtracedotplot_diagextract_designhlm_augmenthlm_influencehlm_residleverageLSresidsmdffitspull_residresid_conditionalresid_marginalrotate_ranefrvcvarcomp.mer
Dependencies:clicpp11dplyrfarvergenericsggplot2ggrepelgluegtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvnlmepillarpkgconfigpurrrR6rbibutilsRColorBrewerRcppRcppArmadilloRdpackreformulasrlangS7scalesstringistringrtibbletidyselectutf8vctrsviridisLitewithr
Updated JSS code
Last update: 2026-06-30
Started: 2020-12-03
Influence Diagnostics
Overview | hlm_influence() function | Introduction | Obtain influence diagnostics at different levels with level | Investigate deletion of specific observations or groups with delete | Select different types of leverage with leverage argument | Choose between approximations or full refits with approx | na.action and the data argument | hlm_augment function | lme objects from nlme package | Important differences for lme objects | Cook's distance values comparison to other packages | The car package | The lme4 package | lme4 approximation | lme4 full refit
Last update: 2025-05-10
Started: 2020-08-21
Residual Diagnostics
HLMdiag: a diagnostic tool for hierarchical (multilevel) linear models | hlm_resid() function | Types of residuals in multilevel models | Example Data | hlm_resid() usage | General usage | standardize and include.ls | Higher-level residuals | na.action and data | Three-level models | Using hlm_resid() in context | pull_resid() | hlm_augment() | References
Last update: 2020-12-14
Started: 2020-08-21
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Fitting Common Models via 'lm' | adjust_lmList adjust_lmList,formula,data.frame-method adjust_lmList.formula |
| Methylprednisolone data | ahd |
| Autism data | autism |
| Case Deletion for 'mer'/'lmerMod' objects | case_delete case_delete.default case_delete.lme case_delete.lmerMod case_delete.mer |
| Visually comparing shrinkage and LS estimates | compare_eb_ls |
| Calculating influence diagnostics for HLMs | cooks.distance.case_delete covratio.case_delete covtrace.case_delete hlm_influence hlm_influence.default hlm_influence.lme hlm_influence.lmerMod mdffits.case_delete rvc.case_delete |
| Influence on precision of fixed effects in HLMs | covratio covratio.default covratio.lme covratio.lmerMod covratio.mer covtrace covtrace.default covtrace.lme covtrace.lmerMod covtrace.mer |
| Dot plots for influence diagnostics | dotplot_diag |
| Extracting covariance matrices from lme | extract_design |
| Calculating residuals and influence diagnostics for HLMs | hlm_augment hlm_augment.default hlm_augment.lme hlm_augment.lmerMod |
| Calculating residuals from HLMs | hlm_resid hlm_resid.default hlm_resid.lme hlm_resid.lmerMod |
| Diagnostic tools for hierarchical (multilevel) linear models | HLMdiag-package HLMdiag package-HLMdiag |
| Defunct functions in package HLMdiag | diagnostics ggplot_qqnorm group_qqnorm HLMdiag-defunct HLMresid HLMresid.default HLMresid.lmerMod HLMresid.mer |
| Deprecated functions in HLMdiag | HLMdiag-deprecated |
| Leverage for HLMs | leverage leverage.default leverage.lme leverage.lmerMod leverage.mer |
| Calculating least squares residuals | LSresids LSresids.default LSresids.lme LSresids.lmerMod LSresids.mer |
| Influence on fixed effects of HLMs | cooks.distance cooks.distance.lme cooks.distance.lmerMod cooks.distance.mer mdffits mdffits.default mdffits.lme mdffits.lmerMod mdffits.mer |
| Computationally Efficient HLM Residuals | pull_resid pull_resid.default pull_resid.lme pull_resid.lmerMod |
| Radon data | radon |
| Conditional residuals | resid_conditional resid_conditional.default resid_conditional.lme resid_conditional.lmerMod |
| Marginal residuals | resid_marginal resid_marginal.default resid_marginal.lme resid_marginal.lmerMod |
| Random effects residuals | resid_ranef |
| Calculate s-dimensional rotated random effects | rotate_ranef rotate_ranef.default rotate_ranef.lme rotate_ranef.lmerMod rotate_ranef.mer |
| Relative variance change for HLMs | rvc rvc.default rvc.lme rvc.lmerMod rvc.mer |
| Extracting variance components | varcomp.mer |
| Wages for male high school dropouts | wages |
