nucleotideCharts {R453Plus1Toolbox} | R Documentation |
This function plots the relative frequency of the four bases for each position in the sequences.
nucleotideCharts(object, range=0.95, linetypes=c(A="l", C="l", G="l", T="l", N="l"), linecols=c(A="black", C="red", G="blue", T="green", N="grey70"), xlab="Position", ylab="Frequency", ...)
object |
An object of class DNAStringSet, ShortRead or SFFContainer. |
range |
An integer vector of length one or two. If length one only bases up to the percent quantile of read lengths defined by the given value are shown. A vector of length two gives the start and end base between which the nucleotide frequencies are plotted. |
linetypes |
The line types used for the four nucleotids + N, see (see ‘par’) |
linecols |
The colors in which the four nucleotids + N should be plotted. |
xlab |
The X axis label. |
ylab |
The Y axis label. |
... |
Arguments to be passed to methods, such as graphical parameters (see ‘par’). |
Christian Ruckert