calcGC {HELP} | R Documentation

## Calculate GC percent

### Description

Function to calculate GC percent from a nucleotide sequence input

### Usage

    calcGC(x, ...)

### Arguments

`x` | characters containing nucleotide sequence (ex: "ATCGGAA") or an object of class `ExpressionSet`
`...` | Other arguments passed to methods: `\item{allow}`{ vector of characters specifying what other characters to allow in sequence (default is "N") }

### Value

Returns a numerical value (from 0 to 1) indicating the C+G content of the sequence, corresponding to the fraction of (C+G)/(A+T+C+G...). A value of NA is returned if the function encounters an error that prevents proper calculation of GC percent.

### Author(s)

Reid F. Thompson (rthompso@aecom.yu.edu)

### See Also

`calcGC-methods`, `calcTm`

### Examples

    #demo(pipeline,package="HELP")

    calcGC("AAAACGCG")
    calcGC(sequence="cXgXcXgXcXgX",allow="X")

[Package HELP version 1.0.0 Index]