import_peaks_as_df: Read peak file as dataframe with selected columns

In lakhanp1/chipmine: Analyze ChIP-seq Data

Description

Read peak file as dataframe with selected columns

Usage

import_peaks_as_df(
  file,
  peakFormat = "narrowPeak",
  peakCols = c("peakId", "peakEnrichment", "peakPval"),
  sampleId = NULL,
  column_suffix = TRUE
)

Arguments

file	Peak file
peakFormat	one of c("narrowPeak", "broadPeak", "bed")
peakCols	Column to select in dataframe. Column names should be from this list: c("peakChr", "peakStart", "peakEnd", "peakId", "peakScore", "peakStrand", "peakEnrichment", "peakPval", "peakQval", "peakSummit"). Default: c("peakId", "peakEnrichment", "peakPval")
sampleId	sampleId to be used as suffix in column names
column_suffix	Logical: whether to add sampleId suffix to column name. Default: TRUE

Value

A dataframe with columns specified

Examples

NA

lakhanp1/chipmine documentation built on March 6, 2021, 9:06 a.m.