R Observatory: Metrics for LorMe version 2.0.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

LorMe

2.0.2Package record

Lightweight One-Line Resolving Microbial Ecology Program

0packages depend

5.8Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Ningqi WangCRAN page ↗

Provides a robust collection of functions tailored for microbial ecology analysis, encompassing both data analysis and visualization. It introduces an encapsulation feature that streamlines the process into a summary object. With the initial configuration of this summary object, users can execute a wide range of analyses with a single line of code, requiring only two essential parameters for setup. The package delivers comprehensive outputs including analysis objects, statistical outcomes, and visualization-ready data, enhancing the efficiency of research workflows. Designed with user-friendliness in mind, it caters to both novices and seasoned researchers, offering an intuitive interface coupled with adaptable customization options to meet diverse analytical needs.

Install

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

install.packages("LorMe", 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-lorme

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-LorMe

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-LorMe

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: 6.2 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-09-08
ERROR12 OK, 1 ERROR2026-09-07
OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09

Show 3 earlier changesHide 3 earlier changes

ERROR12 OK, 1 ERROR2026-06-08
OK12 OK2026-04-25
NOTE13 OK, 1 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0.2

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 57includes a package overview page
Examples that run: 64%28 run in a plain check (1 of them under a condition) · 14 only when donttest examples are enabled (R CMD check --as-cran) · 2 never run
Exported functions with examples: 94%
Documented parameters: 100%
Return-value docs: 98%
Help pages citing references: 0%

How these are measured

Downloads

5.8K

CRAN downloads in the past year

Rank #6,945 · ~16/day · ~486/mo

Releases R versions

Daily download trend is not available in this view yet.

41330 days

1.2K90 days

5.8K1 year

Compare downloads with other packages →

Also on174 r2u5 autocran

How downloads are counted

Dependencies

Declared dependencies

30 external dependencies (excludes base and recommended)

Installing LorMe adds 161 packages (89 with compiled code, 138 MB of source tarballs). Heaviest: stringi 11 MB, TH.data 8.2 MB, ggplot2 6.0 MB.

Depends (1)

R >= 3.5.0

Imports (21)

methodsape ggalluvial ggplot2 ggpubrgrDevicesmagrittr RColorBrewer scales stringr tidyr vegan dplyr igraph Hmisc fdrtool agricolae multcompView DescTools HH coin

LinkingTo (0)

none

Suggests (12)

testthat ggrepel readr patchworkgridpermute indicspecies S4Vectors tibble DESeq2 phyloseq microeco

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Ningqi Wang

Gaofei Jiang

Author · added in 1.1.0

Yaozhong Zhang

Author

Listed in earlier versions (1)

Geofei Jiang

no longer listed · 1.0.0

Releases (7)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
2.0.2Latest
record
2026-01-12 · current release · diff ↗
2.0.1
record
2025-11-17 · diff ↗
2.0.0
record
2025-11-17 · diff ↗ ·
added 10 exports
.LorMe_opts, LorMe_defaults, LorMe_options, LorMe_pipeline, Trans_from_microeco, Trans_from_phylo, Trans_to_microeco, Trans_to_phylo, add_tree, safe_run
R
R 4.5.0 released · 2025-04-11
1.2.1
record
2025-03-14 · diff ↗
1.2.0
record
2025-03-12 · diff ↗
1.1.0
record
2024-09-13 · diff ↗
1.0.0
record
2024-08-29
R
R 4.4.0 released · 2024-04-24

Package metadata

First published: 2024-08-29
Total releases: 7 / 2 yrs
License: GPL-3 OSI
Minimum R: ≥ 3.5.0
Bundled data: 2.0 MB / 4 files
Download size: 2.1 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("LorMe")

Format

Wang, N., Jiang, G., & Zhang, Y. (2026). LorMe: Lightweight One-Line Resolving Microbial Ecology Program (Version 2.0.2) [Computer software]. https://doi.org/10.32614/CRAN.package.LorMe

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 LorMe version 2.0.2 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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