BCellMA (version 0.3.2)

aa_dist: Average frequency of nucleotide mutations resulting in amino acid substitution in FRs and CDRs

Description

Calculate average frequency of nucleotide mutations resulting in amino acid substitution in CDRs and/or in FRs.

Usage

aa_dist(data)

Arguments

data

CDRs and FRs colums from IMGT/HighV-Quest table 7 coled "7_V-REGION-mutation-and-AA-change-table.txt"

Value

Output is the data matrix of average mutation frequency of nucleotide mutations resulting in amino acid substitution.

References

Zuckerman NS., Hazanov H., Barak M., Edelman H., Hess S., Shcolnik H., Dunn-Walters D.,and Mehr R. Somatic hypermutation and antigen-driven selection of B cells are altered inautoimmune diseases.J Autoimmun, 35(4):325 - 335, 2010. doi: 10.1016/j.jaut.2010.07.004.

Examples

data(IMGTtab7)
Regions<-cbind(IMGTtab7$FR1_IMGT,IMGTtab7$CDR1_IMGT, IMGTtab7$FR2_IMGT)
Regions_matrix<-aa_dist(data=Regions)