Plot Examples

[gowerc]

No corresponding issue but this PR introduces example code to create the quantity plots that @mercifr1 was after. I think most are relatively straight forward.

The only exception is the population plot which requires some clunky manual derivation (with #296 having the potential to simplify this).

[github-actions]

Code Coverage Summary

Filename                          Stmts    Miss  Cover    Missing
------------------------------  -------  ------  -------  --------------------------------
R/brier_score.R                     166       0  100.00%
R/DataJoint.R                        76       2  97.37%   264, 270
R/DataLongitudinal.R                119       1  99.16%   244
R/DataSubject.R                      69       1  98.55%   124
R/DataSurvival.R                     77       0  100.00%
R/defaults.R                         10       6  40.00%   18-57, 84
R/generics.R                         25       1  96.00%   51
R/Grid.R                             30       0  100.00%
R/GridEven.R                         32       0  100.00%
R/GridFixed.R                        24       0  100.00%
R/GridGrouped.R                      46       0  100.00%
R/GridManual.R                       23       3  86.96%   78-80
R/GridObserved.R                     20       0  100.00%
R/JointModel.R                      122       8  93.44%   142-144, 194, 198, 240, 286, 292
R/JointModelSamples.R                65       0  100.00%
R/Link.R                             55       4  92.73%   159-162
R/LinkComponent.R                    47       5  89.36%   100, 118, 132-149
R/LongitudinalGSF.R                  64       0  100.00%
R/LongitudinalModel.R                37      12  67.57%   70-85
R/LongitudinalQuantities.R           61       0  100.00%
R/LongitudinalRandomSlope.R          27       0  100.00%
R/LongitudinalSteinFojo.R            57       8  85.96%   113-135
R/Parameter.R                        14       0  100.00%
R/ParameterList.R                    42       1  97.62%   184
R/Prior.R                           236       8  96.61%   480, 576, 588-606
R/Quantities.R                       60       0  100.00%
R/settings.R                         12      12  0.00%    55-69
R/SimGroup.R                          5       0  100.00%
R/SimJointData.R                     72       1  98.61%   103
R/SimLongitudinal.R                   5       2  60.00%   22, 40
R/SimLongitudinalGSF.R               51       0  100.00%
R/SimLongitudinalRandomSlope.R       42       0  100.00%
R/SimLongitudinalSteinFojo.R         48       0  100.00%
R/SimSurvival.R                     104       0  100.00%
R/StanModel.R                        15       0  100.00%
R/StanModule.R                      179       6  96.65%   199-200, 242, 253, 390, 418
R/SurvivalExponential.R              10       0  100.00%
R/SurvivalLoglogistic.R              11       0  100.00%
R/SurvivalModel.R                    19       0  100.00%
R/SurvivalQuantities.R              160       1  99.38%   120
R/SurvivalWeibullPH.R                11       0  100.00%
R/utilities.R                       146       1  99.32%   13
R/zzz.R                              28      25  10.71%   3, 8-12, 14-35, 47
TOTAL                              2522     108  95.72%

Diff against main

Filename      Stmts    Miss  Cover
----------  -------  ------  --------
TOTAL             0       0  +100.00%

Results for commit: 219c8c4

Minimum allowed coverage is 80%

♻️ This comment has been updated with latest results

[github-actions]

Unit Tests Summary

  1 files   41 suites   7m 41s ⏱️
124 tests  93 ✅ 31 💤 0 ❌
870 runs  839 ✅ 31 💤 0 ❌

Results for commit 219c8c4.

[github-actions]

Unit Test Performance Difference

Test Suite	$Status$	Time on main	$±Time$	$±Tests$	$±Skipped$	$±Failures$	$±Errors$
SurvivalExponential	💔	$28.18$	$+1.92$	$0$	$0$	$0$	$0$

Additional test case details

Test Suite	$Status$	Time on main	$±Time$	Test Case
SurvivalExponential	💔	$28.10$	$+1.92$	SurvivalExponential_can_recover_true_parameter_including_covariates_

Results for commit fbdf927

♻️ This comment has been updated with latest results.

[danielinteractive]

super thanks @gowerc - @mercifr1 does this do what you need?

[gowerc]

As there is no corresponding issue to close I am just going to merge this but @mercifr1 please feel free to message me if something doesn't make sense or if you'd like to see some changes / more examples