itsadug: Interpreting Time Series and Autocorrelated Data Using GAMMs

GAMM (Generalized Additive Mixed Modeling; Lin & Zhang, 1999) as implemented in the R package 'mgcv' (Wood, S.N., 2006; 2011) is a nonlinear regression analysis which is particularly useful for time course data such as EEG, pupil dilation, gaze data (eye tracking), and articulography recordings, but also for behavioral data such as reaction times and response data. As time course measures are sensitive to autocorrelation problems, GAMMs implements methods to reduce the autocorrelation problems. This package includes functions for the evaluation of GAMM models (e.g., model comparisons, determining regions of significance, inspection of autocorrelational structure in residuals) and interpreting of GAMMs (e.g., visualization of complex interactions, and contrasts).

Install the latest version of this package by entering the following in R:
install.packages("itsadug")
AuthorJacolien van Rij [aut, cre], Martijn Wieling [aut], R. Harald Baayen [aut], Hedderik van Rijn [ctb]
Date of publication2016-06-13 13:07:04
MaintainerJacolien van Rij <vanrij.jacolien@gmail.com>
LicenseGPL (>= 2)
Version2.2

View on CRAN

Man pages

acf_n_plots: Generate N ACF plots of individual or aggregated time series.

acf_plot: Generate an ACF plot of an aggregated time series.

acf_resid: Generate an ACF plot of model residuals. Works for lm, lmer,...

check_resid: Inspect residuals of regression models.

compareML: Function for comparing two GAMM models.

convertNonAlphanumeric: Prepare string for regular expressions (backslash for all...

derive_timeseries: Derive the time series used in the AR1 model.

diagnostics: Visualization of the model fit for time series data.

diff_terms: Compare the formulas of two models and return the...

eeg: Raw EEG data, single trial, 50Hz.

fadeRug: Fade out the areas in a surface without data.

find_difference: Return the regions in which the smooth is significantly...

fvisgam: Visualization of nonlinear interactions, summed effects.

gamtabs: Convert model summary into Latex/HTML table for knitr/R...

get_coefs: Get coefficients for the parametric terms (intercepts and...

get_difference: Get model predictions for differences between conditions.

get_fitted: Get model all fitted values.

get_modelterm: Get estimated for selected model terms.

get_pca_predictions: Return PCA predictions.

get_predictions: Get model predictions for specific conditions.

get_random: Get coefficients for the random intercepts and random slopes.

info: Information on how to cite this package

infoMessages: Turn on or off information messages.

inspect_random: Inspection and interpretation of random factor smooths.

itsadug: Interpreting Time Series, Autocorrelated Data Using GAMMs...

missing_est: Return indices of data that were not fitted by the model.

plot_data: Visualization of the model fit for time series data.

plot_diff: Plot difference curve based on model predictions.

plot_diff2: Plot difference surface based on model predictions.

plot_modelfit: Visualization of the model fit for time series data.

plot_parametric: Visualization of group estimates.

plot_pca_surface: Visualization of the effect predictors in nonlinear...

plot_smooth: Visualization of smooths.

plot_topo: Visualization of EEG topo maps.

print_summary: Print a named list of strings, output from 'summary_data'.

pvisgam: Visualization of partial nonlinear interactions.

report_stats: Returns a description of the statistics of the smooth terms...

resid_gam: Extract model residuals and remove the autocorrelation...

rug_model: Add rug to plot, based on model.

simdat: Simulated time series data.

start_event: Determine the starting point for each time series.

start_value_rho: Extract the Lag 1 value from the ACF of the residuals of a...

summary_data: Print a descriptive summary of a data frame.

timeBins: Label timestamps as timebins of a given binsize.

wald_gam: Function for post-hoc comparison of the contrasts in a single...

Functions

acf_n_plots Man page
acf_plot Man page
acf_resid Man page
check_resid Man page
compareML Man page
convertNonAlphanumeric Man page
derive_timeseries Man page
diagnostics Man page
diff_terms Man page
eeg Man page
fadeRug Man page
find_difference Man page
fvisgam Man page
gamtabs Man page
get_coefs Man page
get_difference Man page
get_fitted Man page
get_modelterm Man page
get_pca_predictions Man page
get_predictions Man page
get_random Man page
info Man page
infoMessages Man page
inspect_random Man page
itsadug Man page
itsadug-package Man page
missing_est Man page
plot_data Man page
plot_diff Man page
plotDiff Man page
plot_diff2 Man page
plotDiff2D Man page
plot_modelfit Man page
plot_parametric Man page
plot_pca_surface Man page
plot_smooth Man page
plot_topo Man page
print_summary Man page
pvisgam Man page
report_stats Man page
resid_gam Man page
resid.gam Man page
rug_model Man page
simdat Man page
start_event Man page
start_value_rho Man page
summary_data Man page
timeBins Man page
wald_gam Man page

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

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