load_seq#

load_seq(filename: PathLike, annotation_path: PathLike | None = None, format_name: str | None = None, moltype: Literal['dna', 'rna', 'protein', 'protein_with_stop', 'text', 'bytes'] | None = None, label_to_name: Callable | None = None, parser_kw: dict | None = None, info: dict | None = None, annotation_offset: int = 0, **kw: dict) Sequence#

loads unaligned sequences from file

Parameters:
filename

path to sequence file

annotation_path

path to annotation file, ignored if format is genbank

format_name

sequence file format, if not specified tries to guess from the path suffix

moltype

the moltype, eg DNA, PROTEIN, ‘dna’, ‘protein’

label_to_name

function for converting original name into another name.

parser_kw

optional arguments for the parser

info

a dict from which to make an info object

annotation_offset

integer indicating start position relative to annotations

**kw

other keyword arguments passed to sequence loader

Returns:
Sequence

Notes

Returns one sequence from a file. Use load_aligned_seqs or load_unaligned_seqs to get a collection.