output.yaml

output:
    - CHROM
    - POS
    - REF
    - ALT
    - SAMPLE:
        vcf-name: INFO.SAMPLE
        ungroup: 'lambda x: x.split(",")'
    - STUDY:
        vcf-name: INFO.STUDY
        ungroup: 'lambda x: x.split(",")'
    - VALIDATION:
        vcf-name: INFO.VALIDATION
        ungroup: 'lambda x: x.split(",")'
    - ID
    - dbSNPBuildID:
        vcf-name: INFO.dbSNPBuildID
    - EFF:
        vcf-name: INFO.EFF
        formatter: formatters.EFF
        options:
            max_num_effects: 1
    - LOF:
        vcf-name: INFO.LOF
        formatter: 'lambda x: x.split("|")[-1].rstrip(")")'
    - 1000Genomes_Total_Count:
        vcf-name: INFO.dbNSFP_1000Gp1_AC
        formatter: int
    - ESP_AA_Allele_Fraction:
        vcf-name: INFO.dbNSFP_ESP6500_AA_AF
        formatter: float
    - ESP_EA_Allele_Fraction:
        vcf-name: INFO.dbNSFP_ESP6500_EA_AF
        formatter: float
    - SIFT:
        vcf-name: INFO.dbNSFP_SIFT_score
        formatter: float
    - PolyPhen2_hdiv:
        vcf-name: INFO.dbNSFP_Polyphen2_HDIV_score
        formatter: 'lambda x: max([float(y) for y in x.split(",")])'
    - PolyPhen2_hvar:
        vcf-name: INFO.dbNSFP_Polyphen2_HVAR_score
        formatter: 'lambda x: max([float(y) for y in x.split(",")])'
    - Mutation_Assessor:
        vcf-name: INFO.dbNSFP_MutationAssessor_score
        formatter: float
    - LRT_score:
        vcf-name: INFO.dbNSFP_LRT_score
        formatter: float
    - Mutation_Taster:
        vcf-name: INFO.dbNSFP_MutationTaster_score
        formatter: float
    - GERPrs:
        vcf-name: INFO.dbNSFP_GERP++_RS
        formatter: float
    - GERPnr:
        vcf-name: INFO.dbNSFP_GERP++_NR
        formatter: float
    - PhyloP_Score:
        vcf-name: INFO.dbNSFP_phyloP
        formatter: float
    - SiPhy:
        vcf-name: INFO.dbNSFP_29way_logOdds
        formatter: float
    - FATHMM_score:
        vcf-name: INFO.dbNSFP_FATHMM_score
        formatter: float
    - Ancestral_Allele:
        vcf-name: INFO.dbNSFP_Ancestral_allele
    - Uniprot_id:
        vcf-name: INFO.dbNSFP_Uniprot_id
        formatter: 'lambda x: ", ".join(filter(lambda x: x!=".", x.split(",")))'