denovo: Filter the genomic intervals for denovo copy number states

Description Usage Arguments Details See Also

Description

This function filters the genomic intervals for denovo events.

Usage

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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


MinimumDistance documentation built on Nov. 8, 2020, 11:11 p.m.