ani_closest.tsv

For each user genome, the closest GTDB species representative genome: the hit with the highest ANI among those with an alignment fraction (AF) ≥ --min_af. Tab-separated with the following columns:

  • user_genome: identifier of the query genome.

  • reference_genome: accession of the closest representative genome.

  • skani_ani: ANI between the query and the reference genome.

  • skani_af: AF between the query and the reference genome.

  • reference_taxonomy: GTDB taxonomy of the reference genome.

  • satisfies_gtdb_circumscription_criteria: True if the ANI is within the species-specific ANI circumscription radius of the reference genome and the AF is ≥ 0.5.

Genomes without any hit with AF ≥ --min_af are reported with no result.

Produced by

Example

user_genome reference_genome        skani_ani       skani_af        reference_taxonomy      satisfies_gtdb_circumscription_criteria
genome_1    GCF_000024185.1 100.0   1.0     d__Archaea;p__Methanobacteriota;c__Methanobacteria;o__Methanobacteriales;f__Methanobacteriaceae;g__Methanobrevibacter;s__Methanobrevibacter ruminantium True
genome_2    GCA_002498365.1 99.16   0.94    d__Archaea;p__Thermoplasmatota;c__Thermoplasmata;o__Methanomassiliicoccales;f__Methanomethylophilaceae;g__VadinCA11;s__VadinCA11 sp002498365    True
genome_3    no result       no result       no result       no result       no result