R Observatory: Metrics for MACER version 0.2.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MACER

0.2.1Package record

Molecular Acquisition, Cleaning, and Evaluation in R 'MACER'

0packages depend

8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Robert G YoungCRAN page ↗GitHub ↗

To assist biological researchers in assembling taxonomically and marker focused molecular sequence data sets. 'MACER' accepts a list of genera as a user input and uses NCBI-GenBank and BOLD as resources to download and assemble molecular sequence datasets. These datasets are then assembled by marker, aligned, trimmed, and cleaned. The use of this package allows the publication of specific parameters to ensure reproducibility. The 'MACER' package has four core functions and an example run through using all of these functions can be found in the associated repository https://github.com/rgyoung6/MACER_example.

Install

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

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

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

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-macer

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-MACER

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-MACER

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: 1.8 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 0.2.1

READMEYes · 2,254 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 4
Examples that run: 0%4 never run
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 100%

How these are measured

Downloads

8K

CRAN downloads in the past year

Rank #7,537 · ~22/day · ~667/mo

Releases R versions

Daily download trend is not available in this view yet.

39430 days

1.2K90 days

8K1 year

Compare downloads with other packages →

Also on65 r2u5 autocran

How downloads are counted

Repository

rgyoung6/macer ↗Account: rgyoung6

2Stars

3Forks

0Open issues

1Open PRs

0Releases

181Commits

1Commit identities

181 commits · Last activity 2023-11-16 · Default branch at 0.2.2, ahead of CRAN 0.2.1 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): 0%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 2

Stars over time

2021-11-22 · 12026-07-07 · 2

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/rgyoung6/macer on 2026-10-21.

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing MACER adds 31 packages (18 with compiled code, 21 MB of source tarballs). Heaviest: ggplot2 6.0 MB, Rcpp 1.8 MB, isoband 1.5 MB.

Depends (0)

none

Imports (10)

rentrez ape httrstatsutilsggplot2parallelpbapplygrDevicespng

LinkingTo (0)

none

Suggests (0)

none

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)

Author

Author

Author, Copyright holder

Releases (4)

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
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
0.2.1Latest
record
2022-12-03 · current release · diff ↗
0.2.0
record
2022-10-04 · diff ↗
R
R 4.2.0 released · 2022-04-22
0.1.1
record
2021-09-08 · diff ↗
0.1.0
record
2021-07-05
R
R 4.1.0 released · 2021-05-18

Package metadata

First published: 2021-07-05
Total releases: 4 / 5 yrs
License: GPL-2 | GPL-3 OSI
Download size: 29 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("MACER")

Format

Young, R. G., Gill, R., Gillis, D., & Hanner, R. H. (2022). MACER: Molecular Acquisition, Cleaning, and Evaluation in R 'MACER' (Version 0.2.1) [Computer software]. https://doi.org/10.32614/CRAN.package.MACER

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 MACER version 0.2.1 [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.

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