load_aligned_seqs

load_aligned_seqs(
    filename,
    format_name=None,
    moltype='text',
    label_to_name=None,
    parser_kw=None,
    info=None,
    **kwargs,
)

loads aligned sequences from file

Parameters

Name	Type	Description	Default
filename	str | pathlib.Path	path to sequence file	required
format_name	str | None	sequence file format, if not specified tries to guess from the path suffix	None
moltype	MolTypeLiteral	the moltype, eg DNA, PROTEIN, ‘dna’, ‘protein’	'text'
label_to_name	typing.Callable[[str], str] | None	function for converting original name into another name.	None
parser_kw	dict | None	optional arguments for the parser	None
kwargs	typing.Any	passed to make_aligned_seqs	{}

Notes

Use cogent3.available_seq_formats() to see the supported formats and file suffixes.

Returns

Name	Type	Description
	Alignment instance