Map Gene Symbols Using GTF File — map_gene_to_chrbp_using_gtf • leo.gwas

Map Gene Symbols Using GTF File

Usage

map_gene_to_chrbp_using_gtf(
  genes,
  gene_col = NULL,
  genome = c("hg19", "hg38"),
  gtf_file = NULL,
  download_dir = "~/Project/ref/gtf"
)

Arguments

genes: A character vector of gene symbols or a data frame containing gene symbols.
gene_col: The column name of gene symbols if genes is a data frame.
genome: The genome assembly to use: "hg19" or "hg38".
gtf_file: The path to a GTF file. If NULL, the function will download the appropriate GTF file.
download_dir: The path where you wanna store the downloaded gtf file

Value

A data frame with mapping results.

Examples

if (FALSE) { # \dontrun{
gene_symbols <- c("TP53", "BRCA1", "EGFR")
map_gene_to_chrbp_using_gtf(genes = gene_symbols, genome = "hg38")

gene_symbols_df <- data.frame(GeneName = gene_symbols, OtherInformation = c(1,2,3))
map_gene_to_chrbp_using_gtf(genes = gene_symbols_df, gene_col = "GeneName" , genome = "hg19")
} # }