R Observatory: Metrics for iimi version 1.2.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

iimi

1.2.2

Identifying Infection with Machine Intelligence

0packages depend

3.9Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Xuekui ZhangFirst published 2024-03-075 releasesCRAN page ↗

A novel machine learning method for plant viruses diagnostic using genome sequencing data. This package includes three different machine learning models, random forest, XGBoost, and elastic net, to train and predict mapped genome samples. Mappability profile and unreliable regions are introduced to the algorithm, and users can build a mappability profile from scratch with functions included in the package. Plotting mapped sample coverage information is provided.

Install

R (CRAN)Ubuntu (r2u)

install.packages("iimi", 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-iimi

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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

Health

CRAN checks

13OK

Slowest check: 8.5 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

15

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-10
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 4 earlier snapshots

ERROR2026-05-03
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-02
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-25
11 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 14%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

3.9K

CRAN downloads in the past year

Rank #14,943 · ~11/day · ~327/mo

Releases R versions

Daily download trend is not available in this view yet.

25530 days

69690 days

3.9K1 year

Compare downloads with other packages →

Also on155 r2u

Dependencies

Declared dependencies

18 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (15)

Biostrings caret data.table dplyr GenomicAlignments IRanges mltools randomForest Rsamtoolsstatsxgboost MTPS stringr R.utils Rdpack

LinkingTo (0)

none

Suggests (4)

rmarkdown testthat knitr httr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (6)

Maintainer (1)

Xuekui Zhang

Author, Maintainer

Authors (6)

Author, Maintainer

Author

Author

Author

Author

Author

Package Timeline

5 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.2.2Latest
2025-12-04 · current release · diff ↗
R
R 4.5.0 released · 2025-04-11
1.2.1
2024-11-01 · diff ↗
1.1.1
2024-07-26 · diff ↗
1.1.0
2024-07-18 · diff ↗
R
R 4.4.0 released · 2024-04-24
1.0.2
2024-03-07
R
R 4.3.0 released · 2023-04-21

Package metadata

First published: 2024-03-07
Total releases: 5 / 2 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Bundled data: 2.4 MB / 7 files
Download size: 2.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("iimi")

Format

Zhang, X., Boyes, I., Ning, H., Numanagić, I., Rott, M., & Xing, L. (2025). iimi: Identifying Infection with Machine Intelligence (Version 1.2.2) [Computer software]. https://doi.org/10.32614/CRAN.package.iimi

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 iimi version 1.2.2 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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