Index A | B | C | D | F | G | H | I | L | N | P | R | S | V | W | X A aa_allele_frequencies() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) aa_allele_frequencies_advanced() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) add_extra_metadata() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) aim_calls() (malariagen_data.ag3.Ag3 method) aim_ids (malariagen_data.ag3.Ag3 property) aim_variants() (malariagen_data.ag3.Ag3 method) average_fst() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) B biallelic_diplotype_pairwise_distances() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) biallelic_diplotypes() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) biallelic_snp_calls() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) biallelic_snps_to_plink() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) C clear_extra_metadata() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) cnv_coverage_calls() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) cnv_discordant_read_calls() (malariagen_data.ag3.Ag3 method) cnv_hmm() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) cohort_diversity_stats() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) cohorts() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) contigs (malariagen_data.af1.Af1 property) (malariagen_data.ag3.Ag3 property) (malariagen_data.amin1.Amin1 property) count_samples() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) coverage_calls_analysis_ids (malariagen_data.af1.Af1 property) (malariagen_data.ag3.Ag3 property) cross_metadata() (malariagen_data.ag3.Ag3 method) D diversity_stats() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) F fst_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) G g123_calibration() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) g123_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) gene_cnv() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) gene_cnv_frequencies() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) gene_cnv_frequencies_advanced() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) genome_features() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) (malariagen_data.amin1.Amin1 method) genome_sequence() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) (malariagen_data.amin1.Amin1 method) H h12_calibration() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) h12_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) h1x_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) haplotype_pairwise_distances() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) haplotype_sites() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) haplotypes() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) haplotypes_frequencies() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) haplotypes_frequencies_advanced() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) I igv() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) ihs_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) is_accessible() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) L lookup_release() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) lookup_sample() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) lookup_study() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) N njt() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) P pairwise_average_fst() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) pca() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) phasing_analysis_ids (malariagen_data.af1.Af1 property) (malariagen_data.ag3.Ag3 property) plot_aim_heatmap() (malariagen_data.ag3.Ag3 method) plot_cnv_hmm_coverage() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_cnv_hmm_heatmap() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_diplotype_clustering() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_diplotype_clustering_advanced() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_diversity_stats() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_frequencies_heatmap() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_frequencies_interactive_map() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_frequencies_time_series() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_fst_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_g123_calibration() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_g123_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_genes() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_h12_calibration() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_h12_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_h12_gwss_multi_overlay() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_h12_gwss_multi_panel() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_h1x_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_haplotype_clustering() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_haplotype_network() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_heterozygosity() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_ihs_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_njt() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_pairwise_average_fst() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_pca_coords() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_pca_coords_3d() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_pca_variance() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_roh() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_sample_location_geo() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_sample_location_mapbox() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_samples_bar() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_samples_interactive_map() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_snps() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_transcript() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) plot_xpehh_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) R releases (malariagen_data.af1.Af1 property) (malariagen_data.ag3.Ag3 property) roh_hmm() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) S sample_metadata() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) (malariagen_data.amin1.Amin1 method) sample_sets() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) site_annotations() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) site_mask_ids (malariagen_data.af1.Af1 property) (malariagen_data.ag3.Ag3 property) snp_allele_counts() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) snp_allele_frequencies() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) snp_allele_frequencies_advanced() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) snp_calls() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) (malariagen_data.amin1.Amin1 method) V view_alignments() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) W wgs_data_catalog() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method) X xpehh_gwss() (malariagen_data.af1.Af1 method) (malariagen_data.ag3.Ag3 method)
