R/get_annovar_colnames_hg38.R

In Bio-Core/BioCore.Annotation: BioCore Variant Annotation Package

get_annovar_colnames_hg38 <- function() {
  return(
    c(
      "Chr",
      "Start",
      "End",
      "Ref",
      "Alt",
      "Func.refGene",
      "Gene.refGene",
      "GeneDetail.refGene",
      "ExonicFunc.refGene",
      "AAChange.refGene",
      "Func.knownGene",
      "Gene.knownGene",
      "GeneDetail.knownGene",
      "ExonicFunc.knownGene",
      "AAChange.knownGene",
      "genomicSuperDups",
      "cosmic70",
      "CLINSIG",
      "CLNDBN",
      "CLNACC",
      "CLNDSDB",
      "CLNDSDBID",
      "avsnp144",
      "SIFT_score",
      "SIFT_pred",
      "Polyphen2_HDIV_score",
      "Polyphen2_HDIV_pred",
      "Polyphen2_HVAR_score",
      "Polyphen2_HVAR_pred",
      "LRT_score",
      "LRT_pred",
      "MutationTaster_score",
      "MutationTaster_pred",
      "MutationAssessor_score",
      "MutationAssessor_pred",
      "FATHMM_score",
      "FATHMM_pred",
      "RadialSVM_score",
      "RadialSVM_pred",
      "LR_score",
      "LR_pred",
      "VEST3_score",
      "CADD_raw",
      "CADD_phred",
      "GERP++_RS",
      "phyloP46way_placental",
      "phyloP100way_vertebrate",
      "SiPhy_29way_logOdds",
      "vcf_chr",
      "vcf_pos",
      "vcf_id",
      "vcf_ref",
      "vcf_alt",
      "vcf_qual",
      "vcf_filter",
      "vcf_info",
      "vcf_format",
      "vcf_format_sample"
    )
  )
}