R Observatory: Metrics for QuESTr version 0.1.1

Balamuta, James Joseph

QuESTr

0.1.1

Constructing Quantitative Environment Sensor using Transcriptomes

0packages depend

5.8Kdownloads / year

3.7%test coverage

11/13checks pass

Overview

About

Maintained by Takahiko KoizumiFirst published 2022-02-151 releasesCRAN page ↗GitHub ↗

A method for prediction of environmental conditions based on transcriptome data linked with the environmental gradients. This package provides functions to overview gene-environment relationships, to construct the prediction model, and to predict environmental conditions where the transcriptomes were generated. This package can quest for candidate genes for the model construction even in non-model organisms' transcriptomes without any genetic information.

Install

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

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

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

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("takakoizumi/QuESTr")

Development version from takakoizumi/QuESTr. Installs pak first if it is not already available.

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-questr

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

# 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-QuESTr

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-QuESTr

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 2.4 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.02

3.7%

Coverage · measured lines

100%

Documentation · exports

2

Dependencies · direct

Check history

NOTE2026-05-12
11 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-05-10
11 OK · 1 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 109 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

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

Downloads

5.8K

CRAN downloads in the past year

Rank #8,623 · ~16/day · ~480/mo

Releases R versions

Daily download trend is not available in this view yet.

15130 days

1.1K90 days

5.8K1 year

Compare downloads with other packages →

Also on83 r2u6 autocran

Repository

GitHub ↗ takakoizumi/questr

Repository practices

Upstream repositoryBeta

Repository github.com/takakoizumi/questr is linked, but repository-practices checks have not run for it yet.

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (2)

ggplot2 kernlab

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (3)

Yasunori Ichihashi

no longer listed · 0.1.1

Takahiko Koizumi

no longer listed · 0.1.1

Kenta Suzuki

no longer listed · 0.1.1

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.1Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2022-02-15
Total releases: 1 / 4 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.5.0
Bundled data: 79 KB / 1 file
Download size: 93 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Start here. This is the citation for the package itself.

citation("QuESTr")

CRAN DOI

https://doi.org/10.32614/CRAN.package.QuESTr

This is the citation for the package. It is not a citation for the R Observatory.

Cite this page

Use this when the claim is about a measurement on this page.

BibTeX

@misc{robservatoryQuESTr,
  author    = {Balamuta, James Joseph},
  title     = {{R} {Observatory}: Metrics for {QuESTr} version 0.1.1},
  year      = {2026},
  publisher = {HJJB, LLC},
  url       = {https://r-observatory.thecoatlessprofessor.com/packages/QuESTr},
  note      = {Data set. Data release v2026-08-05}
}

APA

Balamuta, J. J. (2026). R Observatory: Metrics for QuESTr version 0.1.1 [Data set]. HJJB, LLC. Data release v2026-08-05. https://r-observatory.thecoatlessprofessor.com/packages/QuESTr

RIS

TY  - DATA
AU  - Balamuta, James Joseph
TI  - R Observatory: Metrics for QuESTr version 0.1.1
PY  - 2026
PB  - HJJB, LLC
N1  - Data release v2026-08-05
UR  - https://r-observatory.thecoatlessprofessor.com/packages/QuESTr
ER  -

In prose

These package metrics were obtained from the R Observatory (Balamuta, 2026), data release v2026-08-05, https://r-observatory.thecoatlessprofessor.com/packages/QuESTr.

Bound to data release v2026-08-05, which is what makes the numbers on this page reproducible. See how to cite.

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