Stuart Brown

I would like to use MMseqs2 to add new data in a FASTA file to a set of clusters from another database. These clusters are made with an entirely different...

difficult genome with repeated genes fails to self-align

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We have found an edge case that causes a lot of trouble for Diamond. We are aligning many complete protein sets from different organisms in all-vs-all Diamond jobs. We need...

Request Clustal format output

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Please add an option to output results in Clustal (aln) format. This is the standard for most multiple alignment software, and is certainly more appropriate for users to inspect the...

Hello Mash authors. I am working with mash for protein clustering. We have a large database of 8 million proteins and the current clustering method relies on several stages of...