getFilteredData: Method for retrieving filtered data

In umiAnalyzer: Tools for Analyzing Sequencing Data with Unique Molecular Identifiers

Description

Method for retrieving filtered data

Usage

getFilteredData(
  object,
  name = "default",
  save = FALSE,
  outDir = getwd(),
  fileName = NULL,
  delim = ";"
)

Arguments

object	Requires a UMI sample or UMI experiment object.
name	String. Name of the filter. Default is "default".
save	Logical, should data be saved as csv file? Default is FALSE.
outDir	Output directory
fileName	Filename to be used, default is the same as 'name'
delim	Character string denoting delimiter to be used, default is ';'.

Value

A filtered consensus table, as a tibble.

Examples

library(umiAnalyzer)

main = system.file('extdata', package = 'umiAnalyzer')

samples <- list.dirs(path = main, full.names = FALSE, recursive = FALSE)

simsen <- createUmiExperiment(experimentName = 'simsen',mainDir = main,sampleNames = samples)
simsen <- filterUmiObject(simsen)

myfilter <- getFilteredData(simsen)
myfilter

umiAnalyzer documentation built on Nov. 25, 2021, 9:07 a.m.