pplacer.<domain>.json

The raw output generated by pplacer.

Produced by

• classify

• classify_wf

Example

{"tree":
  "((((((((((((((((((((((GB_GCA_002498125.1:0.17454{0}, ...",
  "placements":
  [
    {"p": [[0.00110044638583, 1579, 1, -3185321.84798, 0.00140069377318]],
      "nm": [["genome_2", 1]]
    },
    {"p": [[5.05004882812e-06, 1849, 1, -3541277.48905, 6.11351501465e-06]],
      "nm": [["genome_1", 1]]
    },
    {"p": [[0.00694927704923, 1579, 1, -2665208.65502, 0.0230770193005]],
      "nm": [["genome_3", 1]]
    }
  ], "metadata":
  {"invocation":
    "pplacer -m WAG -j 3 -c \/release89\/pplacer\/gtdb_r89_ar53.refpkg -o classify_output\/classify\/intermediate_results\/pplacer\/pplacer.ar53.json align_output\/align\/gtdbtk.ar53.user_msa.fasta"
  }, "version": 3, "fields":
  ["distal_length", "edge_num", "like_weight_ratio", "likelihood",
    "pendant_length"
  ]
}