importBed: Read bed-file into GRanges
In AneuFinder: Analysis of Copy Number Variation in Single-Cell-Sequencing Data

Description Usage Arguments Value Author(s) Examples

This is a simple convenience function to read a bed(.gz)-file into a GRanges-class object. The bed-file is expected to have the following fields: chromosome, start, end, name, score, strand.

1	importBed(bedfile, skip = 0, chromosome.format = "NCBI")

`bedfile`	Filename of the bed or bed.gz file.
`skip`	Number of lines to skip at the beginning.
`chromosome.format`	Desired format of the chromosomes. Either 'NCBI' for (1,2,3 ...) or 'UCSC' for (chr1,chr2,chr3 ...).

A GRanges-class object with the contents of the bed-file.

Aaron Taudt

## Get an example BED file with single-cell-sequencing reads
bedfile <- system.file("extdata", "KK150311_VI_07.bam.bed.gz", package="AneuFinderData")
## Import the file and skip the first 10 lines
data <- importBed(bedfile, skip=10)