Package index • vernissage

Import and names

read_cohort_csv(): Read a "French" CSV file
path_resolve_nfc(): Resolve a path whose accented characters are stored differently on disk
clean_colnames(): Clean column names
rename_with_map(): Rename columns with a named vector
catalog_vars(): Catalogue of the variables, by block

visit_add_deltas(): Change between two visits
visit_map_suffix(): Map unusual visit suffixes to the <ROOT>_<VISIT> convention
visit_root() visit_swap(): Visit suffixes of variable names
visit_to_long(): Wide <ROOT>_<VISIT> data to long format
combine_bilateral(): Mean of the left and right sides of a bilateral measure

transform_boxcox() transform_boxcox_resid() transform_apply_resid(): Box-Cox decision with car's documented rule
transform_compare() transform_choose() transform_propagate() transform_apply(): Compare, choose and apply transformations

describe_cohort(): Overview table of a cohort
describe_normality(): Normality of each variable
na_summary() na_complete_cases(): Missing values per variable and complete cases per variable set
cor_partial_spearman() cor_matrix_test(): Correlations
pca_compute() pca_scores_join(): Principal component analysis
score_composite(): Composite score per domain

plot_cor_heatmap() plot_cor_cross(): Correlation heatmaps
plot_delta_vs_baseline(): Change versus baseline value
plot_distribution(): Distribution of one or several variables
plot_distribution_overview(): Overlaid standardised densities of a block of variables
plot_forest(): Annotated forest plot
plot_na_map(): Missing-data map
plot_paired_visits(): Paired visits: one line per subject between two visits
plot_pca_scree() plot_pca_ind() plot_pca_var() plot_pca_contrib() plot_pca_distribution(): Figures of a principal component analysis
plot_radar(): Radar plot comparing groups on several variables
plot_trajectories() plot_trajectory_grid(): Individual trajectories across visits (spaghetti plot)
theme_pub(): Publication theme for ggplot2
theme_rotate_x(): Rotated x-axis labels that stay attached to their tick
pal_okabe_ito() pal_levels(): Colour palettes

fmt_sci() fmt_num() fmt_p() fmt_stars(): Format numbers and p-values for figures and tables
label_get() label_expand(): Readable labels of variables

gt_pub(): Publication table with gt
gt_sig_colors(): Colours of significance highlighting
gt_signif() gt_highlight_rows() gt_signif_legend(): Highlight significant results in gt tables
dt_export(): Interactive table with export buttons
qmd_tabset() qmd_callout_raw(): Quarto output from a results: asis chunk