File

class biotite.File

Bases: Copyable

Base class for all file classes. The constructor creates an empty file, that can be filled with data using the class specific setter methods. Conversely, the class method read() reads a file from disk (or a file-like object from other sources). In order to write the instance content into a file the write() method is used.

copy() → Self

Create a deep copy of this object.

Returns:

copy

A copy of this object.

abstractmethod classmethod read(file: str | PathLike[str] | IO[Any]) → Self

Parse a file (or file-like object).

Parameters:

filefile-like object or str

The file to be read. Alternatively a file path can be supplied.

Returns:

fileFile

An instance from the respective File subclass representing the parsed file.

abstractmethod write(file: str | PathLike[str] | IO[Any]) → None

Write the contents of this File object into a file.

Parameters:

filefile-like object or str

The file to be written to. Alternatively a file path can be supplied.

Gallery

Comparative genome assembly

Comparative genome assembly

Calculation of codon usage

Calculation of codon usage

Detection of disulfide bonds

Detection of disulfide bonds

BinaryCIF as trajectory format

BinaryCIF as trajectory format