R Observatory: Metrics for MantaID version 1.0.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

MantaID

1.0.4Package record

A Machine-Learning Based Tool to Automate the Identification of Biological Database IDs

0packages depend

2.3Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Zhengpeng ZengCRAN page ↗Website ↗

The number of biological databases is growing rapidly, but different databases use different IDs to refer to the same biological entity. The inconsistency in IDs impedes the integration of various types of biological data. To resolve the problem, we developed 'MantaID', a data-driven, machine-learning based approach that automates identifying IDs on a large scale. The 'MantaID' model's prediction accuracy was proven to be 99%, and it correctly and effectively predicted 100,000 ID entries within two minutes. 'MantaID' supports the discovery and exploitation of ID patterns from large quantities of databases. (e.g., up to 542 biological databases). An easy-to-use freely available open-source software R package, a user-friendly web application, and API were also developed for 'MantaID' to improve applicability. To our knowledge, 'MantaID' is the first tool that enables an automatic, quick, accurate, and comprehensive identification of large quantities of IDs, and can therefore be used as a starting point to facilitate the complex assimilation and aggregation of biological data across diverse databases.

Install

R (CRAN)Ubuntu (r2u)

install.packages("MantaID", 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-mantaid

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 6.1 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 OK2026-06-27

Show 8 earlier changesHide 8 earlier changes

ERROR12 OK, 1 ERROR2026-06-21
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-02
ERROR11 OK, 1 ERROR2026-04-25
OK14 OK2026-04-08
ERROR13 OK, 1 ERROR2026-04-07
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.4

README· In the repository, left out of the releaseVignettesNoNEWSNoCitation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 29
Examples that run: 100%5 run in a plain check
Exported functions with examples: 20%
Documented parameters: 93%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

2.3K

CRAN downloads in the past year

Rank #18,073 · ~6/day · ~190/mo

Releases R versions

Daily download trend is not available in this view yet.

27130 days

71290 days

2.3K1 year

Compare downloads with other packages →

Also on70 r2u

How downloads are counted

Repository

molaison/mantaid ↗Account: Molaison

0Stars

0Forks

0Open issues

0Open PRs

0Releases

License file reads as GPL-3.0 · Last activity 2024-09-18

Responsiveness

not measured

How these are measured

PracticesBeta

6 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/molaison/mantaid on 2026-10-18.

Continuous integration (1)

GitHub Actions

Docs source (3)

pkgdown

GitHub Pages site last deployed 2024-09-18 · The repository has a site deploy workflow

pkgdown site last built 2024-09-18

Reproducibility and dev environment (1)

renv

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

23 external dependencies (excludes base and recommended)

Installing MantaID adds 109 packages (57 with compiled code, 84 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB. 1 more not on CRAN is not measured.

Depends (6)

R >= 4.4.0biomaRt caret keras mlr3tuning mlr3

Imports (14)

ggplot2 data.table magrittr stringr tibble tidyr tidyselect ggcorrplot reshape2 scutr paradox RColorBrewer purrr dplyr

LinkingTo (0)

none

Suggests (5)

mlr3hyperband mlr3learners rangerrpartxgboost

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 (5)

Zhengpeng Zeng

Author, Maintainer, Contributor · added in 1.0.3

Longfei Mao

Author, Copyright holder · added in 1.0.3

Feng Yu

Author · added in 1.0.3

Jiamin Hu

Contributor · added in 1.0.3

Xiting Wang

Contributor · added in 1.0.3

Maintainer since 1.0.1 (2022)

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
1.0.4Latest
record
2024-09-09 · current release · diff ↗
unarchivedReturned to CRAN
2024-08-27
1.0.3
record
2024-08-27 · diff ↗ ·
added 3 exports
mi_filter_feat, mi_get_importance, mi_unify_mod
archivedRemoved from CRAN
2024-07-16
issues were not corrected in time
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
1.0.2
record
2022-10-18 · diff ↗
1.0.1
record
2022-10-17
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-10-17
Total releases: 4 / 4 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 4.4.0
Bundled data: 84 KB / 4 files
Download size: 165 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("MantaID")

The package provides a citation file, so citation() returns the authors' own entry.

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 MantaID version 1.0.4 [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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