R Observatory: Metrics for csalert version 2024.6.24

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

csalert

2024.6.24Package record

Alerts from Public Health Surveillance Data

0packages depend

7.5Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Richard Aubrey WhiteCRAN page ↗GitHub ↗Website ↗Issues ↗

Helps create alerts and determine trends by using various methods to analyze public health surveillance data. The primary analysis method is based upon a published analytics strategy by Benedetti (2019) doi:10.5588/pha.19.0002.

Changes in 2024.6.24

Inclusion of short_term_trend_sts_v1.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("csalert", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("csids/csalert")

Development version from csids/csalert. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-csalert

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-csalert

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-csalert

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 2.1 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2024.6.24

READMEYes · 89 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 2024.6.24Citation fileNoWebsiteYes

Help pages: 9
Examples that run: 100%4 run in a plain check
Exported functions with examples: 57%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Short term trend HTML

How these are measured

Downloads

7.5K

CRAN downloads in the past year

Rank #6,723 · ~21/day · ~627/mo

Releases R versions

Daily download trend is not available in this view yet.

50330 days

1.3K90 days

7.5K1 year

Compare downloads with other packages →

Also on76 r2u10 autocran

How downloads are counted

Repository

csids/csalert ↗Organization: csids

0Stars

0Forks

0Open issues

0Open PRs

0Releases

Last activity 2025-12-23

Responsiveness

not measured

How these are measured

PracticesBeta

1 development-tooling and community-health practice detected across 1 family in the upstream repository

Checks run against github.com/csids/csalert on 2026-10-21.

Docs source (1)

GitHub Pages site last deployed 2025-12-23

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

19 external dependencies (excludes base and recommended)

Installing csalert adds 39 packages (21 with compiled code, 47 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 3.3.0

Imports (9)

data.table magrittr ggplot2 glm2 cstidy cstime lubridate stringr surveillance

LinkingTo (0)

none

Suggests (10)

testthat knitr rmarkdown rstudioapi glue covidnor csdata csmaps ggrepel plnr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (4)

Richard Aubrey White

Author, Maintainer since 2023.6.17 (2023)

Beatriz Valcarcel Salamanca

Author

Chi Zhang

Author

CSIDS

Copyright holder

Listed in earlier versions (2)

Richard Aubrey

no longer listed · 2023.6.17 to 2024.6.24

Beatriz Valcarcel

no longer listed · 2023.6.17 to 2024.6.24

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
2024.6.24Latest
record
2024-06-24 · current release · diff ↗ ·
added 6 exports
add_holiday_effect, short_term_trend_sts_v1, signal_detection_hlm, simulate_baseline_data, simulate_seasonal_outbreak_data, simulate_spike_outbreak_data
R
R 4.4.0 released · 2024-04-24
2023.6.17
record
2023-06-15
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2023-06-15
Total releases: 2 / 3 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.3.0
Download size: 131 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("csalert")

Format

White, R. A., CSIDS, Salamanca, B. V., & Zhang, C. (2024). csalert: Alerts from Public Health Surveillance Data (Version 2024.6.24) [Computer software]. https://doi.org/10.32614/CRAN.package.csalert

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for csalert version 2024.6.24 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →