summarySNP: Summarize the frequency and percentage of genotypes and...
In Kevinpen/SNPgrou: Association of SNP to Multiple Phenotypic Traits Group

Description Usage Arguments Value References Examples

Summarize the frequency and percentage of genotypes and alleles in the SNP data The input SNP data need prepared by prep() function

1	summarySNP(x)

`x`	The result data returned from prep function. it is a object of type "SNP" and "factor" it contains levels of genotype and attribute of "alleleNames"

A data frame contains the allele frequency and percentage

González JR1, Armengol L, Solé X, Guinó E, Mercader JM, Estivill X, Moreno V(2007). SNPassoc: an R package to perform whole genome association studies. Bioinformatics. 2007 Mar 1;23(5):644-5. Epub 2007 Jan 31. DOI: 10.1093/bioinformatics/btm025.

data(geneSNP)
s3 <- prep(geneSNP$snp10003)
summarySNP(s3)
#This data contains Genotypes:
#Genotyepes frequency percentage
#1        A/T        15      30.61
#2        C/C         1       2.04
#3        C/T         1       2.04
#4        G/C        16      32.65
#5        G/G        16      32.65
#
#
#This data contains Alleles:
#Alleles frequency petcentage
#1       A        15      18.52
#2       G        32      39.51
#3       C        18      22.22
#4       T        16      19.75