Taxrule
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Taxrules are algorithms that determine how the taxonomy of each sequence in the assembly is calculated during the taxonomic annotation process.
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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 tounresolved[--min_score FLOAT]: if the score does not surpass this value, the taxonomy is set tono-hit[--tax_collision_random]: if two best scoring taxonomic names are within[---min_diff FLOAT], select a taxonomic name at random
Updated over 8 years ago