[,gwaswloc,ANY,ANY,ANY-method
                        extractor for gwaswloc
bindcadd_snv            bind CADD scores of Kircher et al. 2014 to a
                        GRanges instance
chklocs                 return TRUE if all named SNPs with locations in
                        both the SNPlocs package and the gwascat agree
ebicat_2020_04_30       serialized gwaswloc instance from april 30
                        2020, sample of 50000 records
g17SM                   SnpMatrix instance from chr17
getRsids                generic snp name retrieval
getRsids,gwaswloc-method
                        specific snp name retrieval
getTraits               generic trait retrieval
getTraits,gwaswloc-method
                        specific trait retrieval
get_cached_gwascat      use BiocFileCache to retrieve and keep an image
                        of the tsv file
gg17N                   genotype matrix from chr17 1000 genomes
gr6.0_hg38              image of locon6 in GRanges, lifted over to hg38
gw6.rs_17               character vector of rs numbers for SNP on chr17
gwastagger              GRanges with LD information on 9998 SNP
gwaswloc-class          container for gwas hit data and GRanges for
                        addresses
gwcex2gviz              Prepare salient components of GWAS catalog for
                        rendering with Gviz
ldtagr                  expand a list of variants by including those in
                        a VCF with LD exceeding some threshold; uses
                        snpStats ld()
locon6                  location data for 10000 SNP
locs4trait              get locations for SNP affecting a selected
                        trait
low17                   SnpMatrix instance from chr17
makeCurrentGwascat      read NHGRI GWAS catalog table and construct
                        associated GRanges instance records for which
                        clear genomic position cannot be determined are
                        dropped from the ranges instance an effort is
                        made to use reasonable data types for GRanges
                        metadata, so some qualifying characters such as
                        (EA) in Risk allele frequency field will simply
                        be omitted during coercion of contents of that
                        field to numeric.
obo2graphNEL            convert a typical OBO text file to a graphNEL
                        instance (using Term elements)
process_gwas_dataframe
                        convert GWAS catalog data.frame to gwaswloc, a
                        GRanges extension with simple show method
riskyAlleleCount        given a matrix of subjects x SNP calls, count
                        number of risky alleles
si.hs.37                Seqinfo for GRCh37
si.hs.38                Seqinfo for GRCh38
subsetByChromosome      generic trait subsetting
subsetByChromosome,gwaswloc-method
                        specific trait subsetting
subsetByTraits          generic trait subsetting
subsetByTraits,gwaswloc-method
                        specific trait subsetting
topTraits               operations on GWAS catalog
traitsManh              use ggbio facilities to display GWAS results
                        for selected traits in genomic coordinates
