core.alignment.make_unaligned_seqs

core.alignment.make_unaligned_seqs(
    data,
    *,
    moltype,
    label_to_name=None,
    info=None,
    source=None,
    annotation_db=None,
    offset=None,
    name_map=None,
    is_reversed=False,
    reversed_seqs=None,
    storage_backend=None,
    **kwargs,
)

Initialise an unaligned collection of sequences.

Parameters

Name	Type	Description	Default
data	Mapping[str, str | bytes | NumpyIntArrayType] | list[str | bytes | NumpyIntArrayType] | SeqsDataABC	sequence data, a SeqsData, a dict {name: seq, …}, an iterable of sequences	required
moltype	MolTypes	string representation of the moltype, e.g., ‘dna’, ‘protein’.	required
label_to_name	Callable[[str], str] | None	function for converting original names into other names.	None
info	dict[str, Any] | None	a dict from which to make an info object	None
source	PathType | None	origins of this data, defaults to ‘unknown’. Converted to a string and added to info[“source”].	None
annotation_db	AnnotationDbABC | None	annotation database to attach to the collection	None
offset	dict[str, int] | None	a dict mapping names to annotation offsets	None
name_map	dict[str, str] | None	a dict mapping sequence names to “parent” sequence names. The parent name will be used for querying a annotation_db.	None
is_reversed	bool	entire collection has been reverse complemented	False
reversed_seqs	set[str] | None	set of names that are on the reverse strand of the parent sequence	None
storage_backend	str | None	name of the storage backend to use for the SeqsData object, defaults to cogent3 builtin.	None
kwargs	Any	keyword arguments for the storage driver	{}

Notes

If no annotation_db is provided, but the sequences are annotated, an annotation_db is created by merging any annotation db’s found in the sequences. If the sequences are annotated AND an annotation_db is provided, only the annotation_db is used.