topolow-package	topolow-package
adaptive_MC_sampling	adaptive_MC_sampling
add_noise_bias	add_noise_bias
analyze_network_structure	analyze_network_structure
c25	color_palettes
c25_claud	color_palettes
c25_old	color_palettes
c25_older	color_palettes
calculate_annual_distances	calculate_annual_distances
calculate_cumulative_distances	calculate_cumulative_distances
calculate_diagnostics	calculate_diagnostics
calculate_prediction_interval	calculate_prediction_interval
calculate_procrustes_difference	calculate_procrustes_difference
calculate_procrustes_significance	calculate_procrustes_significance
calculate_weighted_marginals	calculate_weighted_marginals
check_gaussian_convergence	check_gaussian_convergence
clean_data	clean_data
color_palettes	color_palettes
coordinates_to_matrix	coordinates_to_matrix
create_and_optimize_RACMACS_map	create_and_optimize_RACMACS_map
create_base_theme	create_base_theme
create_cv_folds	create_cv_folds
create_diagnostic_plots	create_diagnostic_plots
create_topolow_map	create_topolow_map
denv_data	denv_data
detect_outliers_mad	detect_outliers_mad
dist_to_titer_table	dist_to_titer_table
error_calculator_comparison	error_calculator_comparison
example_positions	example_positions
find_mode	find_mode
generate_complex_data	generate_complex_data
generate_kde_samples	generate_kde_samples
generate_synthetic_datasets	generate_synthetic_datasets
generate_unique_string	generate_unique_string
get_grid	get_grid
ggsave_white_bg	ggsave_white_bg
gmultiple	gmultiple
h3n2_data	h3n2_data
hiv_titers	hiv_titers
hiv_viruses	hiv_viruses
increase_na_percentage	increase_na_percentage
initial_parameter_optimization	initial_parameter_optimization
likelihood_function	likelihood_function
log_transform_parameters	log_transform_parameters
long_to_matrix	long_to_matrix
make_interactive	make_interactive
new_aesthetic_config	new_aesthetic_config
new_annotation_config	new_annotation_config
new_dim_reduction_config	new_dim_reduction_config
new_layout_config	new_layout_config
only_virus_vs_as	only_virus_vs_as
parameter_sensitivity_analysis	parameter_sensitivity_analysis
plot.parameter_sensitivity	plot.parameter_sensitivity
plot.profile_likelihood	plot.profile_likelihood
plot.topolow_amcs_diagnostics	plot.topolow_amcs_diagnostics
plot.topolow_convergence	plot.topolow_convergence
plot_3d_mapping	plot_3d_mapping
plot_cluster_mapping	plot_cluster_mapping
plot_distance_heatmap	plot_distance_heatmap
plot_network_structure	plot_network_structure
plot_temporal_mapping	plot_temporal_mapping
prepare_heatmap_data	prepare_heatmap_data
print.parameter_sensitivity	print.parameter_sensitivity
print.profile_likelihood	print.profile_likelihood
print.topolow	print.topolow
print.topolow_amcs_diagnostics	print.topolow_amcs_diagnostics
print.topolow_convergence	print.topolow_convergence
process_antigenic_data	process_antigenic_data
process_distance_matrix	process_distance_matrix
profile_likelihood	profile_likelihood
profile_likelihood_result	profile_likelihood_result
prune_distance_network	prune_distance_network
reduce_dimensions	reduce_dimensions
run_adaptive_sampling	run_adaptive_sampling
sample_from_distribution	sample_from_distribution
save_plot	save_plot
scale_to_original_distances	scale_to_original_distances
scatterplot_fitted_vs_true	scatterplot_fitted_vs_true
summary.topolow	summary.topolow
symmetric_to_nonsymmetric_matrix	symmetric_to_nonsymmetric_matrix
unweighted_kde	unweighted_kde
validate_antigenic_data	validate_antigenic_data
validate_topolow_df	validate_topolow_df
vectorized_process_distance_matrix	vectorized_process_distance_matrix
weighted_kde	weighted_kde
yy_to_yyyy	yy_to_yyyy
