SeqDataView

class SeqDataView(*, parent: str | bytes | ndarray, alphabet: AlphabetABC, parent_len: int, seqid: str | None = None, slice_record: SliceRecordABC = None, offset: int = 0)

A view class for SeqsData, providing methods for different representations of a single sequence.

Attributes:

alphabet

array_value

returns the sequence as a numpy array

bytes_value

returns the sequence as bytes

is_reversed

offset

parent

parent_len

seqid

slice_record

str_value

returns the sequence as a string

Methods

copy([sliced])	returns copy
to_rich_dict()	returns a json serialisable dict.

with_offset

Notes

str_value / array_value are not complemented, but can be reversed. The latter is done by the Sequence object which has a moltype.

alphabet

property array_value: ndarray

returns the sequence as a numpy array

property bytes_value: bytes

returns the sequence as bytes

copy(sliced: bool = False)

returns copy

property is_reversed: bool

property offset: int

parent

property parent_len: int

property seqid: str

property slice_record: SliceRecordABC

property str_value: str

returns the sequence as a string

to_rich_dict() → dict[str, str | dict[str, str]]

returns a json serialisable dict.

Notes

This method will slice the underlying sequence to the start and stop values

with_offset(offset: int)