Exploratory Graphics for Pharmacometrics

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Documentation for package ‘xgxr’ version 1.1.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

case1_pkpd	Case 1 PKPD Data Set
edit_rmd_template_str	Edit a Rmd Template from xgx
get_rmd_name	Determine the name of a Rmd template
get_rmd_str	'get_rmd_str' returns a Rmd template string, based on the desired PKPD parameters
mad	Multiple Ascending Dose Data Set
mad_missing_duplicates	Multiple Ascending Dose Data Set (Duplicates Removed)
mad_nca	Multiple Ascending Dose Noncompartmental Analysis (NCA) dataset
nlmixr_theo_sd	nlmixr Theophylline SD Data Set
predict.nls	predict.nls
predictdf	Prediction data frame from ggplot2 Get predictions with standard errors into data frame
predictdf.nls	Prediction data frame for nls
predictdf.polr	Prediction data frame for polr
sad	Single Ascending Dose Data Set
StatSmoothOrdinal	Stat object for producing smooths through ordinal data
StatSummaryBinQuant	Stat ggproto object for binning by quantile for xgx_stat_ci
StatSummaryOrdinal	Stat ggproto object for creating ggplot layers of binned confidence intervals for probabiliities of classes in ordinal data
theme_xgx	Calls the standard theme for xGx graphics
xgx_annotate_filenames	Append filenames to bottom of the plot
xgx_annotate_status	Create a status (e.g. DRAFT) annotation layer
xgx_annotate_status_png	Annotate a png file or directory of png files
xgx_auto_explore	Produce an xgx-styled report the given dataset using xgx R markdown templates, or a user-provided R markdown template. (Note: The R markdown template provided must be formatted in a similar manner to that of the xgx R markdown templates to work.) The working directory will contain a new directory ('xgx_autoexplore_output') after running this function, which will contain a directory for the dataset, and futher a directory for the type of analysis / R markdown template.
xgx_breaks_log10	Sets the default breaks for log10
xgx_breaks_time	Sets the default breaks for a time axis
xgx_check_data	Check data for various issues
xgx_conf_int	'xgx_conf_int' returns a dataframe with mean +/- confidence intervals
xgx_dirs2char	Append filenames to bottom of the plot
xgx_geom_ci	Plot data with mean and confidence intervals
xgx_geom_pi	Plot data with median and percent intervals
xgx_geom_smooth	Wrapper for stat_smooth
xgx_geom_smooth_emax	Wrapper for stat_smooth
xgx_labels_log10	Nice labels for log10.
xgx_minor_breaks_log10	Sets the default minor_breaks for log10 scales
xgx_plot	Create a new xgx plot
xgx_save	Saving plot, automatically annotating the status and denoting the filenames
xgx_save_table	Saving table as an image, also labeling the program that created the table and where the table is stored
xgx_scale_x_log10	log10 scales the x axis with a "pretty" set of breaks
xgx_scale_x_percentchangelog10	percentchangelog10 transform for the y scale.
xgx_scale_x_reverselog10	Reverse-log transform for the x scale.
xgx_scale_x_time_units	Convert time units for plotting
xgx_scale_y_log10	log10 scales the y axis with a "pretty" set of breaks
xgx_scale_y_percentchangelog10	percentchangelog10 transform for the y scale.
xgx_scale_y_reverselog10	Reverselog transform for the y scale.
xgx_scale_y_time_units	Convert time units for plotting
xgx_stat_ci	Plot data with mean and confidence intervals
xgx_stat_pi	Plot data with median and percent intervals
xgx_stat_smooth	Wrapper for stat_smooth
xgx_summarize_covariates	Summarize Covariate information in a dataset
xgx_summarize_data	Check data for various issues
xgx_theme	Calls the standard theme for xGx graphics
xgx_theme_set	Sets the standard theme for xGx graphics