ckaks-class: Class "ckaks"

In CorMut: Detect the correlated mutations based on selection pressure

Description

ckaks class for representing the ckaksCodon/ckaksAA results

Slots

ckaks:

Object of class "matrix". Conditional kaks among codons or amino mutations

lod:

Object of class "matrix". LOD confidence score indicates the significance of correlated mutations

Methods

filterSites

signature(object = "ckaks"): Filter positive selection amino mutations for objects of ckaks class.

plot

signature(object = "ckaks"): Plot the influence network among mutations for objects of ckaks class.

See Also

filterSites,ckaksCodon,ckaksAA,plot.ckaks

Examples

#examplefile=system.file("extdata","PI_treatment.aln",package="CorMut")
#example=seqFormat(examplefile)
#result=ckaksAA(example)

CorMut documentation built on April 28, 2020, 7:09 p.m.