get.chrom.length: Get Chromosome Length

In GRIN2: Genomic Random Interval (GRIN)

Get Chromosome Length

Description

Retrieves chromosome size data for the human GRCh38 (hg38) genome assembly using UCSC chromInfo data, accessed via the circlize package.

Usage

get.chrom.length(genome.assembly)

Arguments

genome.assembly

Character string specifying the genome assembly. Currently, only "Human_GRCh38" is supported.

Details

The function fetches chromosome size information from the UCSC genome browser via the circlize::read.chromInfo() function. It returns data for all 22 autosomes in addition to X and Y chromosomes in the human GRCh38 (hg38) assembly. Chromosome names are formatted without the "chr" prefix.

Value

A data frame with the following columns:

chrom

Chromosome identifier (e.g., 1, 2, ..., X, Y).

size

Chromosome size in base pairs.

Author(s)

Abdelrahman Elsayed [e-mail] and Stanley Pounds [e-mail]

References

Cao, X., Elsayed, A. H., & Pounds, S. B. (2023). Statistical Methods Inspired by Challenges in Pediatric Cancer Multi-omics.

See Also

read.chromInfo

Examples

# Retrieve chromosome size data for the GRCh38 genome assembly
hg38.chrom.size <- get.chrom.length("Human_GRCh38")

GRIN2 documentation built on June 17, 2025, 9:11 a.m.