Mercurial > repos > iuc > gemini_set_somatic
view test-data/gemini_dbinfo_result.tabular @ 0:230c975e7759 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/gemini commit 4bbfca6f0e9cae9a8f263aad4eab7304c96358c4
| author | iuc |
|---|---|
| date | Thu, 18 Feb 2016 08:57:23 -0500 |
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table_name column_name type variants chrom text variants start integer variants end integer variants vcf_id text variants variant_id integer variants anno_id integer variants ref text variants alt text variants qual float variants filter text variants type text variants sub_type text variants gts blob variants gt_types blob variants gt_phases blob variants gt_depths blob variants gt_ref_depths blob variants gt_alt_depths blob variants gt_quals blob variants gt_copy_numbers blob variants gt_phred_ll_homref blob variants gt_phred_ll_het blob variants gt_phred_ll_homalt blob variants call_rate float variants in_dbsnp bool variants rs_ids text variants sv_cipos_start_left integer variants sv_cipos_end_left integer variants sv_cipos_start_right integer variants sv_cipos_end_right integer variants sv_length integer variants sv_is_precise bool variants sv_tool text variants sv_evidence_type text variants sv_event_id text variants sv_mate_id text variants sv_strand text variants in_omim bool variants clinvar_sig text variants clinvar_disease_name text variants clinvar_dbsource text variants clinvar_dbsource_id text variants clinvar_origin text variants clinvar_dsdb text variants clinvar_dsdbid text variants clinvar_disease_acc text variants clinvar_in_locus_spec_db bool variants clinvar_on_diag_assay bool variants clinvar_causal_allele text variants pfam_domain text variants cyto_band text variants rmsk text variants in_cpg_island bool variants in_segdup bool variants is_conserved bool variants gerp_bp_score float variants gerp_element_pval float variants num_hom_ref integer variants num_het integer variants num_hom_alt integer variants num_unknown integer variants aaf real variants hwe decimal(2,7) variants inbreeding_coeff decimal(2,7) variants pi decimal(2,7) variants recomb_rate decimal(2,7) variants gene text variants transcript text variants is_exonic bool variants is_coding bool variants is_splicing bool variants is_lof bool variants exon text variants codon_change text variants aa_change text variants aa_length text variants biotype text variants impact text variants impact_so text variants impact_severity text variants polyphen_pred text variants polyphen_score float variants sift_pred text variants sift_score float variants anc_allele text variants rms_bq float variants cigar text variants depth integer variants strand_bias float variants rms_map_qual float variants in_hom_run integer variants num_mapq_zero integer variants num_alleles integer variants num_reads_w_dels float variants haplotype_score float variants qual_depth float variants allele_count integer variants allele_bal float variants in_hm2 bool variants in_hm3 bool variants is_somatic bool variants somatic_score float variants in_esp bool variants aaf_esp_ea decimal(2,7) variants aaf_esp_aa decimal(2,7) variants aaf_esp_all decimal(2,7) variants exome_chip bool variants in_1kg bool variants aaf_1kg_amr decimal(2,7) variants aaf_1kg_eas decimal(2,7) variants aaf_1kg_sas decimal(2,7) variants aaf_1kg_afr decimal(2,7) variants aaf_1kg_eur decimal(2,7) variants aaf_1kg_all decimal(2,7) variants grc text variants gms_illumina float variants gms_solid float variants gms_iontorrent float variants in_cse bool variants encode_tfbs text variants encode_dnaseI_cell_count integer variants encode_dnaseI_cell_list text variants encode_consensus_gm12878 text variants encode_consensus_h1hesc text variants encode_consensus_helas3 text variants encode_consensus_hepg2 text variants encode_consensus_huvec text variants encode_consensus_k562 text variants vista_enhancers text variants cosmic_ids text variants info blob variants cadd_raw float variants cadd_scaled float variants fitcons float variants in_exac bool variants aaf_exac_all decimal(2,7) variants aaf_adj_exac_all decimal(2,7) variants aaf_adj_exac_afr decimal(2,7) variants aaf_adj_exac_amr decimal(2,7) variants aaf_adj_exac_eas decimal(2,7) variants aaf_adj_exac_fin decimal(2,7) variants aaf_adj_exac_nfe decimal(2,7) variants aaf_adj_exac_oth decimal(2,7) variants aaf_adj_exac_sas decimal(2,7) variants exac_num_het int variants exac_num_hom_alt int variants exac_num_chroms int variants max_aaf_all REAL variant_impacts variant_id integer variant_impacts anno_id integer variant_impacts gene text variant_impacts transcript text variant_impacts is_exonic bool variant_impacts is_coding bool variant_impacts is_splicing bool variant_impacts is_lof bool variant_impacts exon text variant_impacts codon_change text variant_impacts aa_change text variant_impacts aa_length text variant_impacts biotype text variant_impacts impact text variant_impacts impact_so text variant_impacts impact_severity text variant_impacts polyphen_pred text variant_impacts polyphen_score float variant_impacts sift_pred text variant_impacts sift_score float samples sample_id integer samples family_id text samples name text samples paternal_id text samples maternal_id text samples sex text samples phenotype text samples ethnicity text gene_detailed uid integer gene_detailed chrom text gene_detailed gene text gene_detailed is_hgnc bool gene_detailed ensembl_gene_id text gene_detailed transcript text gene_detailed biotype text gene_detailed transcript_status text gene_detailed ccds_id text gene_detailed hgnc_id text gene_detailed entrez_id text gene_detailed cds_length text gene_detailed protein_length text gene_detailed transcript_start text gene_detailed transcript_end text gene_detailed strand text gene_detailed synonym text gene_detailed rvis_pct float gene_detailed mam_phenotype_id text gene_summary uid integer gene_summary chrom text gene_summary gene text gene_summary is_hgnc bool gene_summary ensembl_gene_id text gene_summary hgnc_id text gene_summary transcript_min_start text gene_summary transcript_max_end text gene_summary strand text gene_summary synonym text gene_summary rvis_pct float gene_summary mam_phenotype_id text gene_summary in_cosmic_census bool