biomart.SNP.position: Fetches the chromosomal coordinates of the specified SNP IDs

In alesssia/timesaveR: Widely used function to save time on everyday work

Fetches the chromosomal coordinates of the specified SNP IDs

Description

Uses biomaRt function to fetch the chromosomal coordinates for the given SNP IDs It uses the given BioMart database.

Usage

biomart.SNP.position(rs, mart, with.alleles = FALSE)

Arguments

rs	the variant mame (rs ID, ...)
mart	BioMart database
with.alleles	whether including variant alleles (default: FALSE)

Value

reference SNP IDs with its genomic coordinates, or reference SNP IDs with its genomic coordinate and alleles

Author(s)

Alessia Visconti

Examples

mybiomart <- biomart.fetch.SNP.grch37.mart()
biomart.SNP.position("rs9890579", mybiomart)
biomart.SNP.position("rs9890579", mybiomart, with.alleles=TRUE)

alesssia/timesaveR documentation built on Jan. 26, 2024, 5:21 p.m.