EDAMAligner

class EDAMAligner(force_download: bool | None = None)

Bases: Aligner

Aligner for the EDAM ontology.

Instantiate the aligner.

Attributes Summary

alt_key_match	Set this if there's another part of the data besides the ID that should be matched
curation_header	Header to put on the curation table, corresponding to get_curation_row()
key	The key for the external registry

Methods Summary

get_skip()	Get entries that should be skipped and their reasons.
getter()	Get the EDAM registry.

Attributes Documentation

alt_key_match: ClassVar[str | None] = 'name'

Set this if there’s another part of the data besides the ID that should be matched

curation_header: ClassVar[Sequence[str]] = ('name', 'description')

Header to put on the curation table, corresponding to get_curation_row()

key: ClassVar[str] = 'edam'

The key for the external registry

Methods Documentation

get_skip() → Mapping[str, str]

Get entries that should be skipped and their reasons.

getter()

Get the EDAM registry.