id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
16690	Should ChimeraX structure prediction focus on Boltz-1, Chai-1, AlphaFold 3, ...?	Tom Goddard	Tom Goddard	"There is a lot of competition making AlphaFold 3 clones.  Boltz-1 from MIT seems to be the only one that is fully open source including training data. Chai-1 has open source inference.  AlphaFold 3 is limited to non-commercial use.  The following review suggests Boltz-1 may get the most developer support because it is open.

    The ABCs of Alphafold 3, Boltz and Chai-1
    https://blog.booleanbiotech.com/alphafold3-boltz-chai1

The Boltz-1 and Chai-1 papers are on biorxiv

    https://www.biorxiv.org/content/10.1101/2024.11.19.624167v2
    https://www.biorxiv.org/content/10.1101/2024.10.10.615955v2

Boltz-1 and Chai-1 have github repositories

    https://github.com/jwohlwend/boltz
    https://github.com/chaidiscovery/chai-lab

ChimeraX support might include creating input files for prediction (possibly yaml) and analyzing output confidences scores specific to each program.  ChimeraX could attempt to work with multiple programs.  Being able to directly run predictions from ChimeraX would be useful."	enhancement	closed	moderate		Structure Prediction		fixed						all	ChimeraX