prevtoinc
Prevalence to Incidence Calculations for Point-Prevalence Studies in a Nosocomial Setting
v0.12.0
·
Jun 18, 2019
·
MIT + file LICENSE
Description
Functions to simulate point prevalence studies (PPSs) of healthcare-associated infections (HAIs) and to convert prevalence to incidence in steady state setups. Companion package to the preprint Willrich et al., From prevalence to incidence - a new approach in the hospital setting; <doi:10.1101/554725> , where methods are explained in detail.
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CRAN Check Status
13
NOTE
Show all 13 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-windows-x86_64 | NOTE |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | NOTE |
| r-release-linux-x86_64 | NOTE |
| r-release-macos-arm64 | NOTE |
| r-release-macos-x86_64 | NOTE |
| r-release-windows-x86_64 | NOTE |
Check details (13 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) calculate_CI_I_pp.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_I_mixed.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) calculate_CI_I_pp.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_I_mixed.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calc
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y
checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_I_mixed.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) calc
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checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
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checkRd: (-1) calc
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y
checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
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checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_I_mixed.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calc
...[truncated]...
y
checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_I_mixed.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calc
...[truncated]...
y
checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:16: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:17: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:18: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_I_mixed.Rd:23: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:24: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:25: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:26: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_mixed.Rd:27: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calc
...[truncated]...
y
checkRd: (-1) calculate_I_smooth.Rd:29: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:30: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:31: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:32: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:33: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) calculate_I_smooth.Rd:34: Lost braces in \itemize; \value handles \item{}{} directly
checkRd: (-1) simulate_incidence_stats.Rd:20: Lost braces; missing escapes or markup?
20 | \item{x.los - average length of stay x_{los}}
| ^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
Check History
NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) calculate_CI_I_pp.Rd:13: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:14: Lost braces in \itemize; meant \describe ?
checkRd: (-1) calculate_CI_I_pp.Rd:15: Lost braces in \itemize; meant \describe ?
chec
...[truncated]...
^
checkRd: (-1) simulate_incidence_stats.Rd:21: Lost braces; missing escapes or markup?
21 | \item{x.loi - average length of infection x_{loi}}
| ^
Code & tests
Open call graph →Code intelligence has not been computed for this package yet.
Code
Structure
Lines of code
2,997
Files
53
Compiled share
0%
Has compiled src
No
Language breakdown
R 1,326 (44.2%)Tests 76 (2.5%)Docs 889 (29.7%)Vignettes 706 (23.6%)
API
Exported functions
21
Internal functions
4
Recent export changes
v0.12.0+3 CI_np_bs, calculate_CI_I_pp, create_patient_history_add
v0.11.0+18 A_to_X_dist, X_to_A_dist, calculate_I +15 more
Testing & CI
Has tests
Yes
Test-to-code ratio
0.06
testthat edition
–
CI present
No
CI type
[]
PR gated
No
Docs
Return-value doc rate
90.5%
\dontrun example ratio
0%
Roxygen coverage
100%
Has pkgdown
No
NEWS present
Yes
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
–
Unsafe pattern score
0
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
3.2.2
System requirements
–
C++ standard
–
License
MIT + file LICENSE
License flags
SPDX valid, OSI approved
History
Versions
2
First release
2019-03-10
Latest release
2019-06-18
Avg cadence
100 days
Cold removal rate
–
Dep drift
1
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/cran-code-metrics.