Metabuli produces very different results from mmseqs on longread contigs

[sgalkina]

Dear authors,

Thank you for your work! The tool looks great, and out preliminary testing showed fantastic results for the short reads.

We are interested in contig-level annotations, but in the paper it is stated as the read-level tool. Do you see any problems with using Metabuli for contigs?

We tested it on the CAMI shortread contigs and got amazing species annotations for 99% of contigs. However, after running it on the real longread data, we are seeing major differences (~25% of the annotated part of the dataset) with how mmseqs annotates the same dataset, starting from the phylum level already. Do you know what can be the problem? Does it makes sense to use the tool on the longread contigs?

Thank you, Svetlana