denovo: Filter the genomic intervals for denovo copy number states

In rscharpf/MinimumDistance: A Package for De Novo CNV Detection in Case-Parent Trios

Description

This function filters the genomic intervals for denovo events.

Usage

denovoHemizygous(object, filters = FilterParamMD(state = "221"))

denovoHomozygous(object, filters = FilterParamMD(state = "220"))

denovo(object, filters = FilterParamMD(state = c("220", "221", "224")))

denovoDuplication(object, filters = FilterParamMD(state = "224"))

## S4 method for signature 'MinDistPosterior'
denovoHemizygous(object,
  filters = FilterParamMD(state = "221"))

## S4 method for signature 'MinDistPosterior'
denovoHomozygous(object,
  filters = FilterParamMD(state = "220"))

## S4 method for signature 'MinDistPosterior'
denovoDuplication(object,
  filters = FilterParamMD(state = "224"))

## S4 method for signature 'MinDistPosterior'
denovo(object, filters = FilterParamMD(state
  = c("220", "221", "224")))

Arguments

object	see showMethods(denovo) for a list of defined methods
filters	an object of class FilterParamMD

Details

The function denovo filters genomic intervals for states '220', '221', and '224', corresponding to denovo homozygous deletion, denovo hemizygous deletion, and denovo duplication, respectively.

denovoHemizygous filters genomic intervals for state '221'.

denovoHomozygous filters genomic intervals for state '220'

See Also

FilterParamMD-class

rscharpf/MinimumDistance documentation built on Sept. 16, 2019, 4:12 a.m.