.. _gnomad_chrM_sites: gnomad_chrM_sites ================= * **Versions:** 3.1 * **Reference genome builds:** GRCh38 * **Type:** :class:`hail.Table` Schema (3.1, GRCh38) ~~~~~~~~~~~~~~~~~~~~ .. code-block:: text ---------------------------------------- Global fields: 'vep_version': str 'dbsnp_version': str 'hap_order': array 'dp_hist_all_variants_bin_freq': array 'dp_hist_all_variants_n_larger': int32 'dp_hist_all_variants_bin_edges': array 'mq_hist_all_variants_bin_freq': array 'mq_hist_all_variants_n_larger': int32 'mq_hist_all_variants_bin_edges': array 'tlod_hist_all_variants_bin_freq': array 'tlod_hist_all_variants_n_larger': int32 'tlod_hist_all_variants_bin_edges': array 'age_hist_all_samples_bin_freq': array 'age_hist_all_samples_n_larger': int32 'age_hist_all_samples_n_smaller': int32 'age_hist_all_samples_bin_edges': array 'pop_order': array 'global_annotation_descriptions': struct { 'vep_version': struct { 'Description': str } 'dbsnp_version': struct { 'Description': str } 'hap_order': struct { 'Description': str } 'dp_hist_all_variants_bin_freq': struct { 'Description': str } 'dp_hist_all_variants_n_larger': struct { 'Description': str } 'dp_hist_all_variants_bin_edges': struct { 'Description': str } 'mq_hist_all_variants_bin_freq': struct { 'Description': str } 'mq_hist_all_variants_n_larger': struct { 'Description': str } 'mq_hist_all_variants_bin_edges': struct { 'Description': str } 'tlod_hist_all_variants_bin_freq': struct { 'Description': str } 'tlod_hist_all_variants_n_larger': struct { 'Description': str } 'tlod_hist_all_variants_bin_edges': struct { 'Description': str } 'age_hist_all_samples_bin_freq': struct { 'Description': str } 'age_hist_all_samples_n_larger': struct { 'Description': str } 'age_hist_all_samples_n_smaller': struct { 'Description': str } 'age_hist_all_samples_bin_edges': struct { 'Description': str } 'pop_order': struct { 'Description': str } } 'row_annotation_descriptions': struct { 'locus': struct { 'Description': str } 'alleles': struct { 'Description': str } 'rsid': struct { 'Description': str } 'filters': struct { 'Description': str } 'variant_collapsed': struct { 'Description': str } 'hap_defining_variant': struct { 'Description': str } 'pon_mt_trna_prediction': struct { 'Description': str } 'pon_ml_probability_of_pathogenicity': struct { 'Description': str } 'mitotip_score': struct { 'Description': str } 'mitotip_trna_prediction': struct { 'Description': str } 'vep': struct { 'Description': str } 'common_low_heteroplasmy': struct { 'Description': str } 'base_qual_hist': struct { 'Description': str } 'position_hist': struct { 'Description': str } 'strand_bias_hist': struct { 'Description': str } 'weak_evidence_hist': struct { 'Description': str } 'contamination_hist': struct { 'Description': str } 'heteroplasmy_below_min_het_threshold_hist': struct { 'Description': str } 'excluded_AC': struct { 'Description': str } 'AN': struct { 'Description': str } 'AC_hom': struct { 'Description': str } 'AC_het': struct { 'Description': str } 'hl_hist': struct { 'Description': str 'sub_annotations': struct { 'bin_edges': struct { 'Description': str } 'bin_freq': struct { 'Description': str } 'n_smaller': struct { 'Description': str } 'n_larger': struct { 'Description': str } } } 'dp_hist_all': struct { 'Description': str 'sub_annotations': struct { 'bin_edges': struct { 'Description': str } 'bin_freq': struct { 'Description': str } 'n_smaller': struct { 'Description': str } 'n_larger': struct { 'Description': str } } } 'dp_hist_alt': struct { 'Description': str 'sub_annotations': struct { 'bin_edges': struct { 'Description': str } 'bin_freq': struct { 'Description': str } 'n_smaller': struct { 'Description': str } 'n_larger': struct { 'Description': str } } } 'dp_mean': struct { 'Description': str } 'mq_mean': struct { 'Description': str } 'tlod_mean': struct { 'Description': str } 'AF_hom': struct { 'Description': str } 'AF_het': struct { 'Description': str } 'max_hl': struct { 'Description': str } 'hap_AN': struct { 'Description': str } 'hap_AC_het': struct { 'Description': str } 'hap_AC_hom': struct { 'Description': str } 'hap_AF_hom': struct { 'Description': str } 'hap_AF_het': struct { 'Description': str } 'hap_hl_hist': struct { 'Description': str } 'hap_faf_hom': struct { 'Description': str } 'hapmax_AF_hom': struct { 'Description': str } 'hapmax_AF_het': struct { 'Description': str } 'faf_hapmax_hom': struct { 'Description': str } 'pop_AN': struct { 'Description': str } 'pop_AC_het': struct { 'Description': str } 'pop_AC_hom': struct { 'Description': str } 'pop_AF_hom': struct { 'Description': str } 'pop_AF_het': struct { 'Description': str } 'pop_hl_hist': struct { 'Description': str } 'age_hist_hom': struct { 'Description': str 'sub_annotations': struct { 'bin_edges': struct { 'Description': str } 'bin_freq': struct { 'Description': str } 'n_smaller': struct { 'Description': str } 'n_larger': struct { 'Description': str } } } 'age_hist_het': struct { 'Description': str 'sub_annotations': struct { 'bin_edges': struct { 'Description': str } 'bin_freq': struct { 'Description': str } 'n_smaller': struct { 'Description': str } 'n_larger': struct { 'Description': str } } } } ---------------------------------------- Row fields: 'locus': locus 'alleles': array 'filters': set 'variant_collapsed': str 'hap_defining_variant': bool 'pon_mt_trna_prediction': str 'pon_ml_probability_of_pathogenicity': float64 'mitotip_score': float64 'mitotip_trna_prediction': str 'vep': struct { assembly_name: str, allele_string: str, ancestral: str, colocated_variants: array, end: int32, eas_allele: str, eas_maf: float64, ea_allele: str, ea_maf: float64, eur_allele: str, eur_maf: float64, exac_adj_allele: str, exac_adj_maf: float64, exac_allele: str, exac_afr_allele: str, exac_afr_maf: float64, exac_amr_allele: str, exac_amr_maf: float64, exac_eas_allele: str, exac_eas_maf: float64, exac_fin_allele: str, exac_fin_maf: float64, exac_maf: float64, exac_nfe_allele: str, exac_nfe_maf: float64, exac_oth_allele: str, exac_oth_maf: float64, exac_sas_allele: str, exac_sas_maf: float64, id: str, minor_allele: str, minor_allele_freq: float64, phenotype_or_disease: int32, pubmed: array, sas_allele: str, sas_maf: float64, somatic: int32, start: int32, strand: int32 }>, context: str, end: int32, id: str, input: str, intergenic_consequences: array, impact: str, minimised: int32, variant_allele: str }>, most_severe_consequence: str, motif_feature_consequences: array, high_inf_pos: str, impact: str, minimised: int32, motif_feature_id: str, motif_name: str, motif_pos: int32, motif_score_change: float64, strand: int32, variant_allele: str }>, regulatory_feature_consequences: array, impact: str, minimised: int32, regulatory_feature_id: str, variant_allele: str }>, seq_region_name: str, start: int32, strand: int32, transcript_consequences: array, distance: int32, domains: array, exon: str, gene_id: str, gene_pheno: int32, gene_symbol: str, gene_symbol_source: str, hgnc_id: str, hgvsc: str, hgvsp: str, hgvs_offset: int32, impact: str, intron: str, lof: str, lof_flags: str, lof_filter: str, lof_info: str, minimised: int32, polyphen_prediction: str, polyphen_score: float64, protein_end: int32, protein_start: int32, protein_id: str, sift_prediction: str, sift_score: float64, strand: int32, swissprot: str, transcript_id: str, trembl: str, tsl: int32, uniparc: str, variant_allele: str }>, variant_class: str } 'rsid': set 'common_low_heteroplasmy': bool 'base_qual_hist': array 'position_hist': array 'strand_bias_hist': array 'weak_evidence_hist': array 'contamination_hist': array 'heteroplasmy_below_min_het_threshold_hist': array 'excluded_AC': int64 'AN': int64 'AC_hom': int64 'AC_het': int64 'hl_hist': struct { bin_edges: array, bin_freq: array, n_smaller: int64, n_larger: int64 } 'dp_hist_all': struct { bin_edges: array, bin_freq: array, n_smaller: int64, n_larger: int64 } 'dp_hist_alt': struct { bin_edges: array, bin_freq: array, n_smaller: int64, n_larger: int64 } 'dp_mean': float64 'mq_mean': float64 'tlod_mean': float64 'AF_hom': float32 'AF_het': float32 'max_hl': float64 'hap_AN': array 'hap_AC_het': array 'hap_AC_hom': array 'hap_AF_hom': array 'hap_AF_het': array 'hap_hl_hist': array> 'hap_faf_hom': array 'hapmax_AF_hom': str 'hapmax_AF_het': str 'faf_hapmax_hom': float64 'pop_AN': array 'pop_AC_het': array 'pop_AC_hom': array 'pop_AF_hom': array 'pop_AF_het': array 'pop_hl_hist': array> 'age_hist_hom': struct { bin_edges: array, bin_freq: array, n_smaller: int64, n_larger: int64 } 'age_hist_het': struct { bin_edges: array, bin_freq: array, n_smaller: int64, n_larger: int64 } ---------------------------------------- Key: ['locus', 'alleles'] ----------------------------------------