readIntervalFile {PureCN} | R Documentation

## Read interval file

### Description

Read file containing coordinates of on- and off-target intervals generated by `preprocessIntervals`.

### Usage

    readIntervalFile(interval.file, strict = TRUE, verbose = TRUE)

### Arguments

`interval.file` | A mapping file that assigns GC content and gene symbols to each exon in the coverage files. Used for generating gene-level calls. First column in format CHR:START-END. Second column GC content (0 to 1). Third column gene symbol. This file is generated with the `preprocessIntervals` function.
`strict` | Error out with missing columns
`verbose` | Verbose output

### Value

A `GRanges` object with the parsed intervals.

### Author(s)

Markus Riester

### Examples

    interval.file <- system.file("extdata", "example_intervals.txt",
        package = "PureCN")
    x <- readIntervalFile(interval.file)

[Package PureCN version 2.0.2 Index]