summary.DNAmat_class: Summary statistics
In aumath-advancedr2019/simDNA: Simulate and analyze DNA

Description Usage Arguments Value See Also Examples

Calculates summary statistics useful for analyzing DNA.

1 2	## S3 method for class 'DNAmat_class' summary(DNAmat)

DNAmat

matrix; either a single-nucleotide polymorphism matrix or a segregating sites matrix of class 'DNAmat_class'.

List containing the following components:

`SFS`	The site frequency spectrum
`Watterson`	Watterson's estimator.
`pairwDiff`	The pairwise difference estimator.
`TajimaD`	Tajima's D

SFS, mutRate, TajimaD

# Using the function simDNAseq:
summary(simDNAseq(n = 12, seqLen = 20, mutRate = 5,
               popType = "varPop", expRate = 1.5))

# Creating a segregating sites matrix by hand:
DNAmat <- matrix(c(0,1,0,0,
                   0,1,0,1,
                   0,0,0,0,
                   0,0,0,0), 4,4, byrow=TRUE)
class(DNAmat) <- "DNAmat_class"
summary(DNAmat)