GRIN2 (version 2.0.0)

get.chrom.length: 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)

Value

A data frame with the following columns:

chrom

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

size

Chromosome size in base pairs.

Arguments

genome.assembly

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

Author

Abdelrahman Elsayed and Stanley Pounds

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.

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")