get.chrom.length {GRIN2} | R Documentation |
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 |
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 abdelrahman.elsayed@stjude.org and Stanley Pounds stanley.pounds@stjude.org
References
Cao, X., Elsayed, A. H., & Pounds, S. B. (2023). Statistical Methods Inspired by Challenges in Pediatric Cancer Multi-omics.
See Also
Examples
# Retrieve chromosome size data for the GRCh38 genome assembly
hg38.chrom.size <- get.chrom.length("Human_GRCh38")