get.immunobase.snps: Download GWAS hits from t1dbase.org
In humarray: Simplify Analysis and Annotation of Human Microarray Datasets

Description Usage Arguments Value Author(s) References Examples

Deprecated as this data is no longer available online Retrieve human disease top GWAS hits from t1dbase in build hg19 coords (37). 28 Diseases currently available

1	get.immunobase.snps(disease = "T1D", snps.only = TRUE, show.codes = FALSE)

`disease`	integer (1-28), or character (abbreviation), or full name of one of the listed diseases. A full list of options can be obtained by setting show.codes=TRUE.
`snps.only`	logical, default is just to return a list of rs-ids. Setting FALSE gives a table
`show.codes`	logical, if set to TRUE, instead of looking up t1dbase, will simply return a table of available diseases with their index numbers and abbreviations.

A character vector of SNP rs-ids

Nicholas Cooper nick.cooper@cimr.cam.ac.uk

PMID: 20937630

get.immunobase.snps(show.codes=TRUE) # show codes/diseases available to download

# Deprecated as this data is no longer available online
# get.immunobase.snps(disease="CEL") # get SNP ids for celiac disease
# get.immunobase.snps(disease="AS") # get SNP ids for Ankylosing Spondylitis in build-37/hg19
# get.immunobase.snps(disease=27) # get SNP ids for Alopecia Areata
# get.immunobase.snps("Vitiligo")