actg315raw |
Data from ACTG315 trial of HIV viral load in adults undergoing ART |
add_noise |
Add noise to viral load observations |
biphasic_root |
Biphasic root function |
filter_data |
Prepare input data |
filter_dataTTS |
Prepare input data for non-parametric TTS calculations. |
fit_model |
Fit model and obtain parameter estimates |
fit_model_triphasic |
Fit model and obtain parameter estimates |
get_biphasic |
Compute the biphasic model curve |
get_CI |
Calculate parameter confidence intervals |
get_CItable |
Make parameter summary table |
get_curve |
Compute the model for a given subject's data and best-fit parameters |
get_error |
Evaluate error metric between data and model prediction |
get_error_triphasic |
Evaluate error metric between data and model prediction |
get_nonparametricTTS |
Non-parametric TTS function |
get_optim_fit |
Fit model to data using optim |
get_optim_fit_triphasic |
Fit triphasic model to data using optim |
get_parametricTTS |
Parametric TTS function |
get_params |
Extract fitted parameters |
get_plottheme |
Get plotting theme |
get_singlephase |
Compute the single phase model curve |
get_transformed_params |
Transform parameters |
get_triphasic |
Compute the triphasic model curve |
get_TTS |
Time to suppression (TTS) function |
plot_data |
Plot data |
plot_model |
Plot model fits |
plot_pairs |
Plot pairwise parameter distributions |
plot_TTS |
Plot time to suppression distribution |
remove_vl0 |
Prune viral load data |
simulate_data |
Create data function |
simulate_time |
Simulate timepoints for subjects |
simulate_time_fixed |
Simulate timepoints for subjects according to fixed design. |
simulate_vl |
Simulate vl for subjects |
single_root |
Single phase root function |
summarize_model |
Summarize model output |
switch_params |
Switch names of rate parameters |
switch_simulated_params |
Switch names of simulated rate parameters |
transformVL |
Transform viral load data |
triphasic_root |
Triphasic root function |
tri_switch_params |
Switch names of rate parameters |
ushr |
Master function |
ushr_triphasic |
Master function for the triphasic model |