Is there an existing module for this?
Is there an open PR for this?
Is there an open issue for this?
Further Information
PopPUNK (Population Partitioning Using Nucleotide Kmers) is a tool for rapid bacterial genome clustering that uses variable-length k-mer distances to define and assign strains at population scale. The --create-db subcommand is the first step in the PopPUNK workflow, taking a set of input assemblies and generating a database of k-mer sketches along with a matrix of pairwise core and accessory distances. This database is then used by downstream PopPUNK commands (such as --fit-model or poppunk_assign) to cluster genomes into strains or assign new queries to existing clusters.
Are you going to work on this?
Is there an existing module for this?
Is there an open PR for this?
Is there an open issue for this?
Further Information
PopPUNK (Population Partitioning Using Nucleotide Kmers) is a tool for rapid bacterial genome clustering that uses variable-length k-mer distances to define and assign strains at population scale. The --create-db subcommand is the first step in the PopPUNK workflow, taking a set of input assemblies and generating a database of k-mer sketches along with a matrix of pairwise core and accessory distances. This database is then used by downstream PopPUNK commands (such as --fit-model or poppunk_assign) to cluster genomes into strains or assign new queries to existing clusters.
Are you going to work on this?
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