BrackenDB

Bracken database.

Artifact Format

class BrackenDBDirectoryFormat(model.DirectoryFormat):
    kmers = model.FileCollection(
        r'database(\d{2,})mers\.kmer_distrib$', format=BrackenDBFormat
    )

    @kmers.set_path_maker
    def kmers_path_maker(self, read_len):
        return f'database{read_len}mers.kmer_distrib'

Expected Folder Structure

data
├── database<read_lenght>mers.kmer_distrib
⋮
└── database<read_lenght>mers.kmer_distrib

Where to find BrackenDB

As Output

• build-kraken-db

As Input

• estimate-bracken