topTraits: operations on GWAS catalog

Description Usage Arguments Value Author(s) Examples

View source: R/funcs.R

Description

operations on GWAS catalog

Usage

1
2
3
4
5
topTraits (gwwl, n=10, tag="DISEASE/TRAIT") 

locs4trait(gwwl, trait, tag="DISEASE/TRAIT") 

chklocs(chrtag="20", gwwl)

Arguments

gwwl

instance of gwaswloc

n

numeric, number of traits to report

tag

character, name of field to be used for trait enumeration

trait

character, trait to use for filtering

chrtag

character, chromosome identifier

Value

topTraits returns a character vector of most frequently occurring traits in the database

locs4trait returns a gwaswloc object with records defining associations to the specified trait

chklocs returns a logical that is TRUE when the asserted locations of SNP in the GWAS catalog agree with the locations given in the dbSNP package SNPlocs.Hsapiens.dbSNP144.GRCh37

Author(s)

VJ Carey <stvjc@channing.harvard.edu>

Examples

1
2

vjcitn/gwascat documentation built on May 5, 2019, 7:59 p.m.