Get the genomic range of a candidate gene using the Sobic ID from a gff file.

Get the genomic range of a candidate gene using the Sobic ID from a gff file.

Usage

gene_coord_gff(gene_name, gff_path)

Arguments

gene_name

A character value indicating the Sobic ID of candidate gene.

gff_path

A character value specifying the path to gff3 file. GZ compressed files and URL file paths are acceptable.

Value

A list object of three components indicating the chromosome, start and end coordinates of candidate gene.

Examples

# \donttest{
# example code

# Path to GFF3 file
gff_path <- "https://raw.githubusercontent.com/awkena/panGB/main/Sbicolor_730_v5.1.gene.gff3.gz"
gene_coord_gff(gene_name = "Sobic.005G213600",
               gff_path = gff_path)
#> $chrom
#> [1] "Chr05"
#> 
#> $start
#> [1] 75104537
#> 
#> $end
#> [1] 75106403
#> 

# }