Design Degenerate Oligos from a Multiple DNA Sequence Alignment

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Documentation for package ‘rprimer’ version 1.12.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.RprimerAssay	S4 classes for representation of different Rprimer objects
.RprimerMatchAssay	S4 classes for representation of different Rprimer objects
.RprimerMatchOligo	S4 classes for representation of different Rprimer objects
.RprimerOligo	S4 classes for representation of different Rprimer objects
.RprimerProfile	S4 classes for representation of different Rprimer objects
checkMatch	Check how oligos and assays match to their target sequences
checkMatch-method	Check how oligos and assays match to their target sequences
coerce	S4 classes for representation of different Rprimer objects
consensusProfile	Get sequence information from an alignment
designAssays	Design (RT)-PCR assays
designOligos	Design primers and probes
example-datasets	Example datasets
exampleRprimerAlignment	Example datasets
exampleRprimerAssay	Example datasets
exampleRprimerMatchAssay	Example datasets
exampleRprimerMatchOligo	Example datasets
exampleRprimerOligo	Example datasets
exampleRprimerProfile	Example datasets
plotData	Plot an Rprimer object
plotData-method	Plot an Rprimer object
Rprimer-classes	S4 classes for representation of different Rprimer objects
RprimerAssay	S4 classes for representation of different Rprimer objects
RprimerAssay-class	S4 classes for representation of different Rprimer objects
RprimerMatchAssay	S4 classes for representation of different Rprimer objects
RprimerMatchAssay-class	S4 classes for representation of different Rprimer objects
RprimerMatchOligo	S4 classes for representation of different Rprimer objects
RprimerMatchOligo-class	S4 classes for representation of different Rprimer objects
RprimerOligo	S4 classes for representation of different Rprimer objects
RprimerOligo-class	S4 classes for representation of different Rprimer objects
RprimerProfile	S4 classes for representation of different Rprimer objects
RprimerProfile-class	S4 classes for representation of different Rprimer objects
runRprimerApp	rprimer Shiny application