compute.secondary.structures: Secondary Structure Computations.
In matdoering/openPrimeR: Multiplex PCR Primer Design and Analysis

View source: R/con_primer_secondary_structures.R

compute.secondary.structures

R Documentation

Secondary Structure Computations.

Description

Computes the secondary structures of the input primers using ViennaRNA.

Usage

compute.secondary.structures(
  primer.df,
  mode.directionality = c("fw", "rev", "both"),
  annealing.temperature
)

Arguments

`primer.df`	Primer data frame.
`mode.directionality`	Direction of primers.
`annealing.temperature`	Temperatures at which to compute secondary structures for every primer

Value

Data frame with secondary structure information.

References

Lorenz, Ronny and Bernhart, Stephan H. and Höner zu Siederdissen, Christian and Tafer, Hakim and Flamm, Christoph and Stadler, Peter F. and Hofacker, Ivo L. ViennaRNA Package 2.0 Algorithms for Molecular Biology, 6:1 26, 2011, doi:10.1186/1748-7188-6-26

matdoering/openPrimeR documentation built on July 4, 2025, 3:59 a.m.