get_genes_variants: Get the variants located on the genes

In MCorentin/vargen: Fetching Variants Related to Phenotypes Using Public Databases

Get the variants located on the genes

Description

Get the variants located between the start and stop positions of the genes given as input.

Usage

get_genes_variants(genes, verbose = FALSE)

Arguments

genes	list of genes (can be obtained from get_omim_genes)
verbose	if true, will print progress information (default: FALSE)

Value

a data.frame of variants with the following columns (see: format_output)

• chr (chromosome)

• pos (position of the variant)

• rsid (variant ID)

• ensembl_gene_id ("gene id" of the gene associated with the variant)

• hgnc_symbol ("hgnc symbol" of the gene associated with the variant)

• source (here the value will be "omim")

MCorentin/vargen documentation built on Feb. 6, 2024, 2:32 p.m.