shortName {Modstrings} | R Documentation

## Base information for sequence characters of nucleotide strings containing modifications

### Description

The `alphabet()`, `shortName()` `fullName()` and `nomenclature()` functions return the letters, names and associated abbreviations for the type of ModString. `alphabet()` returns the normal letters and modification letters, whereas `shortName()`, `fullName()` and `nomenclature()` return results for modifications only.

### Usage

    shortName(x)

    fullName(x)

    nomenclature(x)

    ## S4 method for signature 'ModString'
    alphabet(x, baseOnly = FALSE)

    ## S4 method for signature 'ModStringSet'
    alphabet(x, baseOnly = FALSE)

    ## S4 method for signature 'ModString'
    shortName(x)

    ## S4 method for signature 'ModStringSet'
    shortName(x)

    ## S4 method for signature 'ModString'
    fullName(x)

    ## S4 method for signature 'ModStringSet'
    fullName(x)

    ## S4 method for signature 'ModString'
    nomenclature(x)

    ## S4 method for signature 'ModStringSet'
    nomenclature(x)

### Arguments

`x` | a `ModString` or `ModStringSet` object
`baseOnly` | `TRUE` or `FALSE` (default): Should the result omit occurances of the letters `N.-+`?

### Value

a character vector.

### Examples

    alphabet(ModDNAString())
    shortName(ModDNAString())
    nomenclature(ModDNAString())

[Package Modstrings version 1.3.12 Index]