---

type: position_score

table:
  filename: phastCons46_vertebrates.bedGraph.gz
  format: tabix

  header_mode: none

  # defined by score_type
  chrom:
    index: 0
  pos_begin:
    index: 1
  pos_end:
    index: 2

# score values
scores:
  - id: phastCons46_vertebrates
    index: 3
    type: float
    desc: |
      The scores is a number that reflects the conservation at a position.
    large_values_desc: "more conserved"
    small_values_desc: "less conserved"
    histogram:
      type: number
      number_of_bins: 100
      view_range:
        min: 0.0
        max: 1.0
      y_log_scale: True

default_annotation:
  - source: phastCons46_vertebrates
    name: phastcons46_vertebrates


meta:
  summary: |
    phastCons46_vertebrates is a conservation score based on a multiple alignments
    of 45 vertebrate genomes to the human genome.
    

  description: |
    ## phastCons46way vertebrates
    The larger the score, the more conserved the site. Scores range from 0 to 1.
    This score is from:

        http://hgdownload.soe.ucsc.edu/goldenPath/hg19/phastCons46way/README.txt

    This resource contains phastCons scores for multiple alignments
    of 45 vertebrate genomes to the human genome, plus an alternate set of scores
    for the primates subset of species in the alignments, and an alternate set of
    scores for the placental mammal subset of species in the alignments.

    The multiple alignments and methods description are at:
    http://hgdownload.soe.ucsc.edu/goldenPath/hg19/multiz46way/


  labels:
    reference_genome: hg19/genomes/GATK_ResourceBundle_5777_b37_phiX174
