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
ebicat37                a legacy representation of EBI's GWAS catalog
                        with loci annotated to positions on GRCh37
ebicat37UCSC            a legacy representation of EBI's GWAS catalog
                        with loci annotated to positions on GRCh37 but
                        UCSC chromosome names
ebicat_b37              a legacy representation of EBI's GWAS catalog
                        with loci annotated to positions on GRCh37
ebicat_b38              a legacy representation of EBI's GWAS catalog
                        with loci annotated to positions on GRCh38
gwascat-package         representing and modeling data in the NHGRI
                        GWAS catalog, using GRanges and allied
                        infrastructure
gwastagger              data on 1000 genomes SNPs that 'tag' GWAS
                        catalog entries
gwaswloc-class          Class '"gwaswloc"'
gwcex2gviz              Prepare salient components of GWAS catalog for
                        rendering with Gviz
gwdf_2012_02_02         internal data frame for NHGRI GWAS catalog
ldtagr                  expand a list of variants by including those in
                        a VCF with LD exceeding some threshold
locon6                  location information for 10000 SNPs probed on
                        Affy GW 6.0
locs4trait              get locations for SNP affecting a selected
                        trait
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)
riskyAlleleCount        given a matrix of subjects x SNP calls, count
                        number of risky alleles
si.hs.37                seqinfo for GRCh37
topTraits               operations on GWAS catalog
traitsManh              use ggbio facilities to display GWAS results
                        for selected traits in genomic coordinates
