inferGenotypes: infererence of genotypes from ASEset count data

In pappewaio/AllelicImbalance: Investigates Allele Specific Expression

Description

inference of genotypes

Usage

inferGenotypes(
  x,
  strand = "*",
  return.class = "matrix",
  return.allele.allowed = "bi",
  threshold.frequency = 0,
  threshold.count.sample = 1
)

Arguments

x	ASEset
strand	strand to infer from
return.class	'matrix' or 'vector'
return.allele.allowed	vector with 'bi' 'tri' or 'quad'. 'uni' Always gets returned
threshold.frequency	least fraction to classify (see details)
threshold.count.sample	least amount of counts to try to infer allele

Details

Oftern necessary information to link AI to SNPs outside coding region

Author(s)

Jesper R. Gadin

Examples

data(ASEset)
g <- inferGenotypes(ASEset)

pappewaio/AllelicImbalance documentation built on April 11, 2020, 2:58 a.m.