openPrimeR
Bioc currentMultiplex PCR Primer Design and Analysis
Release Lineage
Entered 3.6 · Oct 31, 2017
Current · Requires R 4.6
Description
An implementation of methods for designing, evaluating, and comparing primer sets for multiplex PCR. Primers are designed by solving a set cover problem such that the number of covered template sequences is maximized with the smallest possible set of primers. To guarantee that high-quality primers are generated, only primers fulfilling constraints on their physicochemical properties are selected. A Shiny app providing a user interface for the functionalities of this package is provided by the 'openPrimeRui' package.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
377 34 exported
Complexity
5.8 avg / 65 max
Call network
377 nodes / 578 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
35,819
Files
897
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
47
Internal functions
343
Recent export changes
Testing & CI
Has tests
Yes
Test-to-code ratio
0.03
testthat edition
–
CI present
Yes
CI type
["travis"]
PR gated
No
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
12.5%
Unsafe pattern score
12
Dep constraint coverage
96.7%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0.0
System requirements
5
C++ standard
–
License
GPL-2
License flags
SPDX valid, OSI approved
History
Versions
18
First release
2018-03-22
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
6
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 90%
- Documented parameters
- 95%
- Return-value docs
- 100%
- References docs
- 3%
Topics
Depended on by (1)
Bioconductor (1)
People
- Matthias Döring author maintainer
- Nico Pfeifer author
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("openPrimeR")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.
From data release v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.