id	summary	reporter	owner	description	type	status	priority	milestone	component	version	resolution	keywords	cc	blockedby	blocking	notify_on_close	platform	project
18827	Allow alphafold dimers command to restrict to nearby sequences	Tom Goddard	Tom Goddard	"It is sometimes useful to restrict predictions of dimers to sequences that are near each other on a genome.  If the input fasta sequences are for an organism such as Mycoplasma genitalium in genome order, then it can be useful to do predictions of sequences within N genes of each other because nearby genes more often have direct interactions when they are co-expressed within an operon.

Would like a maxSpacing option with integer value that specifies how far apart two sequences can be in the input list and still produce dimer output.  A value of 1 would mean only adjacent sequence and homo-dimers would be output.

I used this capability in the following demonstration

    https://www.rbvi.ucsf.edu/chimerax/data/local-msa-sep2025/pp_screening.html"	enhancement	closed	moderate		Structure Prediction		fixed		Elaine Meng				all	ChimeraX