pept.base.Transformer#

class pept.base.Transformer[source]#

Bases: ABC, PEPTObject

Base class for PEPT filters (transforming a sample into another) and reducers (transforming a list of samples).

You should only need to subclass Filter and Reducer (or even, better, their more specialised subclasses, e.g. LineDataFilter).

__init__(*args, **kwargs)#

Methods

__init__(*args, **kwargs)

copy([deep])

Create a deep copy of an instance of this class, including all inner attributes.

load(filepath)

Load a saved / pickled PEPTObject object from filepath.

save(filepath)

Save a PEPTObject instance as a binary pickle object.

copy(deep=True)#

Create a deep copy of an instance of this class, including all inner attributes.

static load(filepath)#

Load a saved / pickled PEPTObject object from filepath.

Most often the full object state was saved using the .save method.

Parameters
filepathfilename or file handle

If filepath is a path (rather than file handle), it is relative to where python is called.

Returns
pept.PEPTObject subclass instance

The loaded object.

Examples

Save a LineData instance, then load it back:

>>> lines = pept.LineData([[1, 2, 3, 4, 5, 6, 7]])
>>> lines.save("lines.pickle")
>>> lines_reloaded = pept.LineData.load("lines.pickle")
save(filepath)#

Save a PEPTObject instance as a binary pickle object.

Saves the full object state, including inner attributes, in a portable binary format. Load back the object using the load method.

Parameters
filepathfilename or file handle

If filepath is a path (rather than file handle), it is relative to where python is called.

Examples

Save a LineData instance, then load it back:

>>> lines = pept.LineData([[1, 2, 3, 4, 5, 6, 7]])
>>> lines.save("lines.pickle")
>>> lines_reloaded = pept.LineData.load("lines.pickle")