sokrypton / sokrypton/ColabFold
How to quickly extract iptm score, ptm score for ColabFold_Batch running alphafold multimer files?
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Description
I'm executing ColabFold_batch for run multiple AlphaFold multimer. However, the number of models I run is too heavy to simply extract some data like pTM score or ipTM score. So my question is how to quickly iptm score, ptm score? I know that pLDDT score can be extraction by B-factor in pdb. so I am wondering whether there is a similar way to extract the two score I mention before.
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reviewing how ColabFold_batch writes outputs for AlphaFold multimer runs and where pTM and ipTM values are stored. Determine whether those values can be extracted without processing every model, then document the supported quick extraction workflow and its expected output.
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Assessment
- Domain
- bioinformatics
- Issue type
- Documentation
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100