nucleotide_mutation: The frequencies of nucleotide mutations and the frequencies...

In BCellMA: B Cell Receptor Somatic Hyper Mutation Analysis

Description

Calculate nucleotide (A, T, C and G) mutations, transition, transversion and their frequency.

Usage

nucleotide_mutation(data)

Arguments

data	A colums from 11 to 22 in the IMGT Table 8 caled "8_V-REGION-nt-mutation-statistics.txt".

Value

Output is four different values:

vregion_nt_mut number of nucleotide mutations in V region.

transition_rel the frequencies of transition.

transverion_rel the frequencies of transversion.

trans_transv_anzahl number of transition and transversion in V region.

Examples

data(IMGTtab8)
bm_proband<- nucleotide_mutation(IMGTtab8[,11:22])
percentlabels<- round(bm_proband$vregion_nt_mut/sum(bm_proband$vregion_nt_mut)*100)
pielabels<- paste(percentlabels, "%", sep="")
pie(bm_proband$vregion_nt_mut, col=c("grey50","black","grey90","white"),
    labels=pielabels, cex=1.5, radius = 0.3)
legend("right", c(" prod. IGHV"), cex=1.5)
legend("topleft", c("A","G","T","C"), cex=2, fill=c("grey50","black",
                                                   "grey90","white"))

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