R Observatory: Metrics for riceidconverter version 1.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

riceidconverter

1.1.1Package record

Convert Biological ID from RAP or MSU to SYMBOL for Oryza Sativa

1packages depend

3Kdownloads / year

–test coverage

11/13flavors OK

Overview

About

Maintained by Xiang LICRAN page ↗

Convert one biological ID to another of rice (Oryza sativa). Rice(Oryza sativa) has more than one form gene ID for the genome. The two main gene ID for rice genome are the RAP (The Rice Annotation Project, https://rapdb.dna.affrc.go.jp/, and the MSU(The Rice Genome Annotation Project, http://rice.plantbiology.msu.edu/. All RAP rice gene IDs are of the form Os##g####### as explained on the website https://rapdb.dna.affrc.go.jp/. All MSU rice gene IDs are of the form LOC_Os##g##### as explained on the website http://rice.plantbiology.msu.edu/analyses_nomenclature.shtml. All SYMBOL rice gene IDs are the unique name on the NCBI(National Center for Biotechnology Information, https://www.ncbi.nlm.nih.gov/. The TRANSCRIPTID, is the transcript id of rice, are of the form Os##t#######. The researchers usually need to converter between various IDs. Such as converter RAP to SYMBOLS for function searching on NCBI. There are a lot of websites with the function for converting RAP to MSU or MSU to RA, such as 'ID Converter' https://rapdb.dna.affrc.go.jp/tools/converter. But it is difficult to convert super multiple IDs on these websites. The package can convert all IDs between the three IDs (RAP, MSU and SYMBOL) regardless of the number.

Install

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

install.packages("riceidconverter", 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-riceidconverter

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-riceidconverter

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-riceidconverter

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

2NOTE11OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Xiang LI <ynaulx@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: person(given = "Xiang",
                    family = "LI",
                    role = c("aut", "cre"),
                    email = "ynaulx@gmail.com")
as necessary.

CRAN check page ↗

Slowest check: 57 s · r-devel-windows-x86_64

Status changes

NOTE11 OK, 2 NOTENow
NOTE9 OK, 5 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 2
Examples that run: 100%1 run in a plain check
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

3K

CRAN downloads in the past year

Rank #14,830 · ~8/day · ~249/mo

Releases R versions

Daily download trend is not available in this view yet.

27530 days

81790 days

3K1 year

Compare downloads with other packages →

Also on85 r2u6 autocran36 c2d4u

How downloads are counted

Dependencies

Declared dependencies

1 external dependency (excludes base and recommended)

Installing riceidconverter adds 15 packages (9 with compiled code, 5.2 MB of source tarballs). Heaviest: vctrs 1.0 MB, dplyr 902 KB, rlang 766 KB.

Depends (1)

R >= 3.5.0

Imports (1)

dplyr

LinkingTo (0)

none

Suggests (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Imports 1

Depends, Imports or LinkingTo, most downloaded first

ricegeneann

How these are counted

Code & Tests

People & History

People (from the free-text Author field) (1)

Xiang LI

Maintainer since 1.0.5 (2020)

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
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.1.1Latest
record
2020-02-14 · current release · diff ↗
1.1.0
record
2020-02-08 · diff ↗
1.0.6
record
2020-01-24 · diff ↗
1.0.5
record
2020-01-09
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2020-01-09
Total releases: 4 / 6 yrs
License: Artistic-2.0 OSI
Minimum R: ≥ 3.5.0
Download size: 1.2 MB

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("riceidconverter")

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 riceidconverter version 1.1.1 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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