Compute Fasta v Fasta ANI as opposed to all-v-all

[CarsonJM]

Thanks for the great tool!

Currently, vClust only allows users to compute all-v-all ANI. While this is very useful for clustering, there are also instances where this is not necessary and a query v reference approach would be more efficient.

For example, if I assemble viral sequences and am interested in quickly comparing them to a public database (i.e. IMG/VR) to assess novelty, it would be much faster to align only my query sequences to IMG/VR rather than performing an all-v-all alignment.

Is this something vClust is already capable of, or something that is planned for the future?

[aziele]

Thank you for your feedback and for using Vclust!

Currently, Vclust supports only all-vs-all ANI comparisons. However, we recognize the need for a FASTA-vs-FASTA approach—it's a feature we've needed ourselves many times. We've already started working on this functionality, beginning with the prefilter step, and will subsequently update the align step to support it. We'll share updates as soon as the feature becomes available, though we can’t provide an estimated time for its release.

[CarsonJM]

Fantastic, thank you for the timely reply and information!