R Observatory: Metrics for ProbeDeveloper version 1.1.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ProbeDeveloper

1.1.3Package record

Develop Hybridization Probes

0packages depend

2.7Kdownloads / year

–test coverage

9/13flavors OK

Overview

About

Maintained by Junhui LiCRAN page ↗

Hybridization probes for target sequences can be made based on melting temperature value calculated by R package 'TmCalculator' https://CRAN.R-project.org/package=TmCalculator and methods extended from Beliveau, B. J.,(2018) doi:10.1073/pnas.1714530115, and those hybridization probes can be used to capture specific target regions in fluorescence in situ hybridization and next generation sequence experiments.

Install

R (CRAN)Ubuntu (r2u)

install.packages("ProbeDeveloper", 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-probedeveloper

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

4ERROR9OK

Check messages

ERRORpackage dependenciesr-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-release-macos-arm64, r-release-macos-x86_64

Package required and available but unsuitable version: ‘TmCalculator’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.

CRAN check page ↗

Slowest check: 2.8 min · r-oldrel-windows-x86_64

Status changes

ERROR9 OK, 4 ERRORNow
ERROR11 OK, 2 NOTE, 1 ERROR2026-03-21
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.1.3

READMEYes · 2 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 2
Examples that run: 50%1 run in a plain check · 1 never run
Exported functions with examples: 100%
Documented parameters: 90%
Return-value docs: 100%
Help pages citing references: 50%

How these are measured

Downloads

2.7K

CRAN downloads in the past year

Rank #14,889 · ~7/day · ~226/mo

Releases R versions

Daily download trend is not available in this view yet.

45730 days

79690 days

2.7K1 year

Compare downloads with other packages →

Also on88 r2u

How downloads are counted

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing ProbeDeveloper adds 2 packages (2 with compiled code, 4.3 MB of source tarballs). Heaviest: TmCalculator 2.5 MB, Rcpp 1.8 MB. 7 more not on CRAN are not measured.

Depends (1)

R >= 2.10

Imports (2)

TmCalculator Biostrings

LinkingTo (0)

none

Suggests (0)

none

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 (1)

Junhui Li

Maintainer since 1.0.0 (2019), Author

Releases (5)

Pick two releases to compare their code metrics.

1.1.3Latest
record
2026-09-26 · current release · diff ↗
1.1.2
record
2026-06-13 · diff ↗
R
R 4.6.0 released · 2026-04-24
1.1.1
record
2026-03-23 · diff ↗
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
1.1.0
record
2022-01-31 · diff ↗ ·
removed 1 export
pattern:^[[:alpha:]]+

added 1 export
ProbeMake
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.0.0
record
2019-12-18
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-12-18
Total releases: 5 / 7 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Bundled data: 14 KB / 1 file
Download size: 24 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ProbeDeveloper")

Format

Li, J. (2026). ProbeDeveloper: Develop Hybridization Probes (Version 1.1.3) [Computer software]. https://doi.org/10.32614/CRAN.package.ProbeDeveloper

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 ProbeDeveloper version 1.1.3 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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