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Taxrule

  • Taxrules are algorithms that determine how the taxonomy of each sequence in the assembly is calculated during the taxonomic annotation process.

  • Taxrules are applied to each taxonomic rank.

Taxrule "bestsum"

  • Scores of all hits across all hits files get summed by taxonomic name
  • The taxonomy is then set to :
    • name = taxonomic name with the highest sum-score
    • score = highest sum-score
    • c-value = count of alternative candidates for taxonomic name

Taxrule "bestsumorder"

  • Scores of all hits get summed by taxonomic name for the first hits file (determined by the input order), analogous to bestsum
  • If no hits were found in the first hits file, the next hits file gets processed.

Other parameters

  • The behaviour of a taxrule can be controlled further using arguments when calling BlobTools create
  • [---min_diff FLOAT]: if the two best scoring taxonomic names are within FLOAT of each other, the taxonomy is set to unresolved
  • [--min_score FLOAT]: if the score does not surpass this value, the taxonomy is set to no-hit
  • [--tax_collision_random] : if two best scoring taxonomic names are within [---min_diff FLOAT], select a taxonomic name at random

Taxrule