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valr (version 0.8.4)

read_genome: Read genome files.

Description

Genome files (UCSC "chromSize" files) contain chromosome name and size information. These sizes are used by downstream functions to identify computed intervals that have coordinates outside of the genome bounds.

Usage

read_genome(path)

Value

genome_df, sorted by size

Arguments

path

containing chrom/contig names and sizes, one-pair-per-line, tab-delimited

See Also

Other read functions: read_bed(), read_vcf()

Examples

Run this code
read_genome(valr_example("hg19.chrom.sizes.gz"))

if (FALSE) {
# `read_genome` accepts a URL
read_genome("https://genome.ucsc.edu/goldenpath/help/hg19.chrom.sizes")
}

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