Package: simaerep 1.0.0
Bjoern Koneswarakantha
simaerep: Detect Clinical Trial Sites Over- or Under-Reporting Clinical Events
Monitoring reporting rates of subject-level clinical events (e.g. adverse events, protocol deviations) reported by clinical trial sites is an important aspect of risk-based quality monitoring strategy. Sites that are under-reporting or over-reporting events can be detected using bootstrap simulations during which patients are redistributed between sites. Site-specific distributions of event reporting rates are generated that are used to assign probabilities to the observed reporting rates. (Koneswarakantha 2024 <doi:10.1007/s43441-024-00631-8>).
Authors:
simaerep_1.0.0.tar.gz
simaerep_1.0.0.zip(r-4.7-any)simaerep_1.0.0.zip(r-4.6-any)simaerep_1.0.0.zip(r-4.5-any)
simaerep_1.0.0.tgz(r-4.6-any)simaerep_1.0.0.tgz(r-4.5-any)
simaerep_1.0.0.tar.gz(r-4.7-any)simaerep_1.0.0.tar.gz(r-4.6-any)
simaerep_1.0.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
simaerep/json (API)
| # Install 'simaerep' in R: |
| install.packages('simaerep', repos = c('https://openpharma.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/openpharma/simaerep/issues
Pkgdown/docs site:https://openpharma.github.io
Last updated from:7956f45393. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel | OK | 252 | ||
| source / vignettes | OK | 228 | ||
| linux-release | OK | 229 | ||
| macos-release | OK | 188 | ||
| macos-oldrel | OK | 2073 | ||
| windows-devel | OK | 190 | ||
| windows-release | OK | 203 | ||
| windows-oldrel | OK | 197 | ||
| wasm-release | OK | 128 |
Exports:%>%check_df_visiteval_sitesget_cum_mean_event_devget_portf_configget_portf_event_ratesorivisitplot_dotsplot_sim_exampleplot_sim_examplespurrr_barsim_inframesim_outsim_sitessim_test_data_patientsim_test_data_portfoliosim_test_data_studysimaerepsimaerep_classicsimaerep_inframesite_aggrwith_progress_cnd
Dependencies:blobclicodetoolscowplotcpp11DBIdbplyrdigestdplyrevaluatefarverforcatsfurrrfuturegenericsggplot2globalsgluegtablehighrisobandknitrlabelinglifecyclelistenvmagrittrparallellypillarpkgconfigprogressrpurrrR6RColorBrewerrlangS7scalesstringistringrtibbletidyrtidyselectutf8vctrsviridisLitewithrxfunyaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Get cumulative mean event development | get_cum_mean_event_dev |
| Get Portfolio Configuration | get_portf_config |
| Get Portfolio Event Rates Calculates mean event rates per study and visit in a df_visit simaerep input dataframe. | get_portf_event_rates |
| create orivisit object | orivisit |
| Plots AE per site as dots. | plot_dots |
| Plot simulation example. | plot_sim_example |
| plot AE under-reporting simulation results | plot.simaerep |
| Execute a purrr or furrr function with a progress bar. | purrr_bar |
| Calculate prob for study sites using table operations | sim_inframe |
| simulate under-reporting | sim_out |
| Calculate prob_lower and poisson.test pvalue for study sites. | sim_sites |
| Simulate Portfolio Test Data | sim_test_data_portfolio |
| simulate study test data | sim_test_data_study |
| Create simaerep object | simaerep simaerep_classic simaerep_inframe |
| Aggregate from visit to site level. | site_aggr |
| Conditional 'with_progress'. | with_progress_cnd |