getExperimentFrequencies: Calculate experiment's features frequencies

View source: R/transformationFunctions.R

getExperimentFrequenciesR Documentation

Calculate experiment's features frequencies

Description

getExperimentFrequencies calculate features frequencies.

Usage

getExperimentFrequencies(
  experiment,
  pop_mul = NULL,
  carrier_frequency = FALSE,
  ref = NULL
)

## S3 method for class 'matrix'
getExperimentFrequencies(
  experiment,
  pop_mul = NULL,
  carrier_frequency = FALSE,
  ref = NULL
)

## S3 method for class 'SummarizedExperiment'
getExperimentFrequencies(
  experiment,
  pop_mul = NULL,
  carrier_frequency = FALSE,
  ref = NULL
)

Arguments

experiment

Matrix or SummarizedExperiment object.

pop_mul

Number by which number of samples should be multiplied to get the population size.

carrier_frequency

Logical flag indicating if carrier frequency should be returned.

ref

Wide format data frame with first column named "var" holding features matching experiment and specific populations frequencies in following columns. See getReferenceFrequencies for more details.

Value

Data frame with each row holding specific variable, it's count and frequency.


Genentech/MiDAS documentation built on Feb. 5, 2024, 11:52 a.m.