aa_plot: Plot of average frequency of nucleotide mutations resulting...

In BCellMA: B Cell Receptor Somatic Hyper Mutation Analysis

Description

The average frequency of nucleotide mutations resulting in amino acid substitution can be plotted as an aa_plot().

Usage

aa_plot(data, text, legend.position, characteristics)

Arguments

data	Results from the function aa_dist or aa_cdr3_dist.
text	The legend of the plot.
legend.position	The position of the legend. It can be "none","left", "right", "bottom", "top".
characteristics	is a data set "data(Klassen)" in this package

Value

Output is the plot of average frequency of nucleotide mutations resulting in amino acid substitution. The classes are divided according to IMGT.

References

Pommie C., Levadoux S., Sabatier R., Lefranc G., and Lefranc MP. IMGT standardizedcriteria for statistical analysis of immunoglobulin V-REGION amino acid properties.J MolRecognit, 17(1):17-32, 2004.

Examples

data(IMGTtab7)
Regions<-cbind(IMGTtab7$FR1_IMGT,IMGTtab7$CDR1_IMGT)
allRegions_matrix<-aa_dist(Regions)
data(Klassen)
aa_plot(allRegions_matrix, "Amino acid Distribution", "right", Klassen)

BCellMA documentation built on May 1, 2019, 7:58 p.m.