How to understand output json file?

[WillHua127]

How do i understand the scores, like aggregate_score, ptm, iptm in the json file?

{
  "aggregate_score": 0.4387286305427551,
  "ptm": 0.7986587285995483,
  "iptm": 0.34874609112739563,
  "per_chain_ptm": [
    [
      0.8791998624801636,
      0.4463137984275818
    ]
  ],
  "per_chain_pair_iptm": [
    [
      [
        0.8791998624801636,
        0.34874609112739563
      ],
      [
        0.10360758751630783,
        0.4463137984275818
      ]
    ]
  ],
  "has_inter_chain_clashes": false,
  "chain_intra_clashes": [
    [
      0,
      0
    ]
  ],
  "chain_chain_inter_clashes": [
    [
      [
        0,
        0
      ],
      [
        0,
        0
      ]
    ]
  ]
}

[arogozhnikov]

pTM, ipTM: these scores correspond to those in AF, see their documentation, those are targeting to predict TM score in the absence of reference

clashes: cases when predicted atom positions are too close (i.e. atoms clash). Your input had two chains (or chain and ligand, which will be interpreted as chain in this case). Clashes are computed within chain or when comparing two chains.

aggregated score: see discussion https://github.com/chaidiscovery/chai-lab/discussions/70

[arogozhnikov]

I'll leave this issue open so other users could find it easily