Index of vignette topics

Jump to: A B C D E F G H I J K L M N O P Q R S T U V W Z

A

• add_grouping()
• adjust
  • in comparisons: pairwise
  • in confidence-intervals: adjust
• afex_aov objects
• Analysis of subsets of data
• Analysis of variance
  • versus pos hoc comparisons
  • Type III
• aovList objects
• as.data.frame()
• as.mcmc()
  • in models: S
  • in sophisticated: bayesxtra
• Asymptotic tests
• averaging models

Back to top

B

• Back story of emmeans
• Bayesian models
  • in models: S
  • in sophisticated: mcmc
• bayesplot package
• Beta regression
• betareg models
• Bonferroni adjustment
• boot-satterthwaite method
• [ ] and [[ ]] operators
• brmsfit objects
• by groups
  • Identical comparisons

Back to top

C

• CLD()
  • versus multcomp::cld()
• clm models
• coda package
• coef()
• Comparisons
  • Back-transforming
  • Displaying as groups
  • Graphical
  • with logs
• Confidence intervals
• confint()
• consec contrasts
• Containment d.f.
• contrast()
  • adjust
  • Changing defaults
  • combine
  • interaction
  • Linear functions
  • simple
    • in confidence-intervals: simple
    • in interactions: simple
• Contrasts
  • of other contrasts
  • Custom
  • Formula
  • Pairwise
  • Polynomial
  • Tests of
    • with transformations
• convert_scripts()
• convert_workspace()
• Count regression
• cov.reduce
• Covariates
  • Adjusted
  • Derived
  • emmeans() doesn’t work
  • Interacting with factors
  • Mediating

Back to top

D

• Degrees of freedom
  • Infinite
• Digits, optimizing
• Dunnett method

Back to top

E

• eff contrasts
• emm_basis()
  • Arguments and returned value
  • Hook functions
  • for lqs objects
  • for rsm objects
• emm_list object
• emm_options()
• .emmc functions
• emmeans package
  • Exporting extensions to
  • Exports useful to developers
• emmeans()
  • And the underlying model
  • Changing defaults
  • Surprising results from
  • weights
    • in basics: weights
    • in messy-data: weights
  • With transformations
• emmGrid objects
  • Accessing data
  • Combining and subsetting
  • Modifying
  • Setting defaults for
• emmip()
  • in basics: plots
  • in interactions: factors
• EMMs
  • Appropriateness of
  • What are they?
• emtrends()
  • in interactions: covariates
  • in interactions: oranges
• estHook
• Estimability
• Estimability issues
• Estimated marginal means
  • Defined
• Examples
  • auto.noise
  • Bayesian model
  • cbpp
  • cows
  • fiber
  • framing
  • Gamma regression
  • Insurance claims (SAS)
  • Logistic regression
  • lqs objects
  • MOats
  • mtcars
  • Multivariate
  • Nested fixed effects
  • neuralgia
  • nutrition
  • Oats
  • oranges
    • in comparisons: formulas
    • in interactions: oranges
  • Ordinal model
  • pigs
  • rlm objects
  • Robust regression
  • Split-plot experiment
  • Unbalanced data
  • warpbreaks
  • wine

Back to top

F

• F test
  • vs. pairwise comparisons
• Factors
  • Mediating
• Frequently asked questions

Back to top

G

• gam models
• gamlss models
• GEE models
• Generalized additive models
• Generalized linear models
• Get the model right first
• get_emm_option()
• ggplot2 package
• glmxxx models
• gls models
• Graphical displays
• Grouping factors
• Grouping into separate sets

Back to top

H

• Hook functions
• hpd.summary()
• hurdle models

Back to top

I

• Infinite degrees of freedom
• Interactions
  • Analysis
  • Contrasts
  • Covariate with factors
  • Implied
  • Plotting
  • Possible inappropriateness of marginal means

Back to top

J

• joint
• joint_tests()
  • in confidence-intervals: joint_tests
  • in interactions: contrasts

Back to top

K

• Kenward-Roger d.f.

Back to top

L

• Least-squares means
• Linear functions
• Link functions
• lme models
• lmerMod models
  • in models: L
  • in sophisticated: lmer
  • System options for
• Logistic regression
  • Odds ratios
  • Surprising results
• lsmeans
• lsmeans package
  • Converting scripts
  • Converting workspaces
  • Transitioning from

Back to top

M

• make.tran()
• mcmc objects
• Means
  • Cell
  • Marginal
    • Based on a model
    • of cell means
  • Weighted
    • in basics: eqwts
    • in basics: weights
• Mediating covariates
• mira models
• mlm models
• mmer models
• Model
  • Importance of
  • Importance of getting it right
• Model averaging
• Models
  • Quick reference
• Multi-factor studies
• Multinomial models
• Multiple imputation
• Multiplicity adjustments
• Multivariate models
  • in basics: multiv
  • in interactions: oranges
  • in models: M
• Multivariate t ("mvt") adjustment
• mvtnorm package

Back to top

N

• NAs in the output
• Nesting
  • Auto-detection
• Nesting factors
  • Creating
• Non-estimability
• NonEst values

Back to top

O

• Observational data
• Odds ratios
• Offsets
• opt.digits option
• Options
  • Startup
• Ordinal models
  • Latent scale
  • Linear-predictor scale
  • in models: O
  • prob and mean.class
  • in sophisticated: ordinal

Back to top

P

• pairs()
• Pairwise comparisons
• pairwise contrasts
• plot.emmGrid()
• Plots
  • of confidence intervals
  • of EMMs
  • Interaction-style
• + operator
• Poisson regression
  • Surprising results
• polreg models
• Polynomial regression
• Pooled t
  • Instead of Welch’s t
• postGridHook
• print.summary_emm()

Back to top

Q

• Quadratic terms
• Quick start

Back to top

R

• rbind()
• recover_data()
  • data and params arguments
  • Error handling
  • for lqs objects
  • for rsm objects
• ref_grid()
  • at
  • cov.reduce
  • mult.name
  • nesting
  • offset
• Reference grids
  • Altering
• Registering recover_data and emm_basis methods
• regrid()
  • transform = "log"
  • transform vs. type
• Response scale
• revpairwise contrasts
• rsm package
• rstanarm

Back to top

S

• Satterthwaite d.f.
  • in models: K
  • in models: L
• Selecting results
• Sidak adjustment
• simple = "each"
• Simple comparisons
  • in confidence-intervals: simple
  • in FAQs: interactions
  • in interactions: simple
• specs
  • Formula
• stanreg objects
• * gazing
• Startup options
• str()
• Subsets of data
• summary()
  • adjust
  • Bayesian models
  • HPD intervals
  • infer
    • in comparisons: pairwise
    • in confidence-intervals: summary
  • type = "unlink"
• summary_emm object
  • As a data frame

Back to top

T

• t tests vs. z tests
• test()
  • delta
  • joint = TRUE
• Tests
  • Equivalence
  • Noninferiority
  • Nonzero null
  • One- and two-sided
• Transformations
  • Adding after the fact
  • Back-transforming
  • Custom
  • Faking a log transformation
  • with link function
  • Log
  • Overview
  • Re-gridding
  • Timing is everything
• Trends
  • Estimating and comparing
• trt.vs.ctrl contrasts
• Tukey adjustment
  • Ignored or changed
• type
• Type III tests
  • in confidence-intervals: joint
  • in confidence-intervals: joint_tests

Back to top

U

• Unadjusted tests
• University administration
• update()
  • tran
• Using results

Back to top

V

• vcovHook
• Vignettes
  • Basics
  • Comparisons
  • Confidence intervals and tests
  • Extending emmeans
  • FAQS
  • Interactions
  • Messy data
  • Models
  • Sophisticated models
  • Transformations and link functions
  • Transitioning from lsmeans
  • Utilities and options

Back to top

W

• weights
• Welch’s t comparisons

Back to top

Z

• z tests
  • vs. t tests
• zeroinfl models

Back to top

Index generated by the vigindex package.