format_output: Format the variants data.frame

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

Format the variants data.frame

Description

Used to have consistent output for the variants from OMIM, FANTOM5, GTEx and GWAS.

Usage

format_output(chr, pos, rsid, ensembl_gene_id, hgnc_symbol)

Arguments

chr	list of variant chromosome
pos	list of variant positions
rsid	list of variant rsid
ensembl_gene_id	gene id associated to the variants
hgnc_symbol	hgnc_symbol associated to the variants

Value

a data.frame of variants with the following columns

• chr (chromosome)

• pos (position of the variant)

• rsid (variant ID)

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

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

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