%$%                     Exposition pipe
%<>%                    Assignment pipe
%>%                     Pipe
chisq_pvalues           Compute Chi-squared p-values
chisq_pvalues_gdata     Compute Chi-squared p-values on a Genotype data
                        object
crohn                   Crohn's disease data
diamond_annots          Get diamond ggplot layer.
fetch_allele1.GdsGenotypeReader
                        Fetch allele 1 (GdsGenotypeReader object)
fetch_allele1.GenotypeData
                        Fetch allele 1 (GenotypeData object)
fetch_allele1.GenotypeDataSubset
                        Fetch allele 1 (GenotypeDataSubset object)
fetch_allele1.default   Fetch allele 1 (default object)
fetch_allele2.GdsGenotypeReader
                        Fetch allele 2 (GdsGenotypeReader object)
fetch_allele2.GenotypeData
                        Fetch allele 2 (GenotypeData object)
fetch_allele2.GenotypeDataSubset
                        Fetch allele 1 (GenotypeDataSubset object)
fetch_allele2.default   Fetch allele 2 (default object)
fetch_gds.GdsGenotypeReader
                        Fetch GDS (GdsGenotypeReader)
fetch_gds.GenotypeData
                        Fetch GDS (GenotypeData)
fetch_gds.GenotypeDataSubset
                        Fetch GDS (GenotypeDataSubset)
fetch_gds.default       Fetch GDS (default)
gdata_add_gene_annots   gdata_add_gene_annots
gdata_add_gene_annots_aim_example
                        gdata_add_gene_annots_aim_example
gdata_add_gene_annots_hladr_example
                        gdata_add_gene_annots_hladr_example
gdata_scans_annots      gdata_scan_annots
gdata_snps_annots       gdata_snp_annots
get_biomart_metadb      get_biomart_metadb
get_scan_annot.GenotypeData
                        Get scans annotations (GenotypeData object)
get_scan_annot.GenotypeDataSubset
                        Get scans annotations (GenotypeDataSubset
                        object)
get_snp_annot.GenotypeData
                        Get SNPs annotations (GenotypeData object)
get_snp_annot.GenotypeDataSubset
                        Get SNPs annotations (GenotypeDataSubset
                        object)
ggplot_associations     Ggplot associations
ggplot_ld               Ggplot linkage disequilibrium
ggplot_snp_pos          Ggplot SNPs position
gtable_ld               Gtable of linkage disequilibrium and
                        chromosomic positions
gtable_ld_associations
                        Gtable of linkage disequilibrium and
                        associations
gtable_ld_associations_combine
                        Build gtable by combining ggplots
gtable_ld_associations_gdata
                        Gtable of linkage disequilibrium and
                        associations using a GenotypeData object
gtable_ld_gdata         Gtable of linkage disequilibrium and positions
                        using a GenotypeData object
gtable_ld_grobs         Build gtable by combining ggplots
is_snp_first_dim.GdsGenotypeReader
                        Is SNP first dimension (GdsGenotypeReader
                        object)
is_snp_first_dim.GenotypeData
                        Is SNP first dimension (GenotypeData object)
is_snp_first_dim.MatrixGenotypeReader
                        Is SNP first dimension (MatrixGenotypeReader
                        object)
is_snp_first_dim.NcdfGenotypeReader
                        Is SNP first dimension (NcdfGenotypeReader
                        object)
is_snp_first_dim.default
                        Is SNP first dimension (default)
is_snp_first_dim.gds.class
                        Is SNP first dimension (GDS object)
load_gds_as_genotype_data
                        Load GDS as Genotype Data
parallel_apply          Separate a matrix in a list of matrices of
                        length the number of cores and apply a function
                        on the columns in parallel
print_qc_as_tex_table   print_qc_as_tex_table
save_hgdp_as_gds        save_hgdp_as_gds
select_region_idxs      select_region_idxs
snprelate_allele_frequencies
                        Compute allele frequencie and snp missing rate
snprelate_ld            Wrapper for snpgdsLDMat to compute r2
snprelate_ld_select     Wrapper for snpgdsLDpruning to select Tag SNPs
snprelate_qc            snprelate_qc
