read.rmskFasta {CNEr} | R Documentation

## Read a soft repeat masked fasta

### Description

Read a soft repeat masked fasta file into a `GRanges` object.

### Usage

      read.rmskFasta(fn)

### Arguments

`fn` | `character`(1): The filename of the soft repeat masked fasta.

### Details

Only the lower case based ("a", "c", "g", "t") are considered in the soft repeat masked fasta.

### Value

`GRanges` object with coordinates of repeat masked regions.

### Author(s)

Ge Tan

### See Also

`read.rmMask.GRanges`

### Examples

      fn <- file.path(system.file("extdata", package="CNEr"),
                      "rmsk.fa")
      read.rmskFasta(fn)

[Package CNEr version 1.20.0 Index]