outrigger.tests.index.test_adjacencies module¶

class outrigger.tests.index.test_adjacencies.TestExonJunctionAdjacencies[source]¶

Bases: object

Methods

`adjacencies`(junction_metadata, db)
`adjacent_in_genome`(...)	Dict of upstream and downstream boolean junctions
`adjacent_in_genome_downstream`(...)
`adjacent_in_genome_template`(...)
`adjacent_in_genome_upstream`(...)
`snap25_exon`(db, snap25_exon_id)
`test___init`(junction_metadata, db)
`test___init_missing_required_column`(...)
`test__adjacent_junctions_single_exon`(...)
`test__junctions_genome_adjacent_to_exon`(...)
`test__single_junction_exon_triple`(...)
`test__to_stranded_transcript_adjacency`(...)
`test_neighboring_exons`(adjacencies, ...)

adjacent_in_genome(adjacent_in_genome_upstream, adjacent_in_genome_downstream)[source]¶: Dict of upstream and downstream boolean junctions

test__adjacent_junctions_single_exon(adjacencies, snap25_exon, tasic2016_intermediate)[source]¶

test__junctions_genome_adjacent_to_exon(adjacencies, snap25_exon, adjacent_in_genome)[source]¶

test__single_junction_exon_triple(adjacencies, snap25_exon_id, tasic2016_intermediate, adjacent_in_genome_upstream)[source]¶

test__to_stranded_transcript_adjacency(adjacencies, strand, adjacent_in_genome)[source]¶