GenomeData[Loci]

Collection of gene feature tables (Generic Feature Format Version 3 a.k.a GFF3) describing, among other things, gene-loci.

Artifact Format

class LociDirectoryFormat(model.DirectoryFormat):
    loci = model.FileCollection(r'(.*\_)?loci[0-9]*\.gff$',
                                format=GFF3Format)

    @loci.set_path_maker
    def loci_path_maker(self, genome_id):
        return '%s_loci.gff' % genome_id

Expected Folder Structure

data
├── <some_ID_or_folder>loci<some_number>.gff
⋮
└── <some_ID_or_folder>loci<some_number>.gff

Where to find GenomeData[Loci]

• Predict genes from MAGs tutorial.
• Actions in q2-moshpit that have this semantic type:

As Output

• qiime moshpit predict-genes-prodigal