RNAmediator.Tweaks.RNAtweaks.PLFoldOutput

class RNAmediator.Tweaks.RNAtweaks.PLFoldOutput(text: str)

Output wrapper for unpaired probability files of RNAplfold

Attributes

Missing the lines starting with # is supported

Methods

`__init__`(text)
`from_file`(file_path)	creates PLfoldOutput from a punpaired file
`from_numpy`(array)	creates PLFoldOutput from np arrays
`from_rnamediator_numpy_output`(file_path)	creates PLfoldOutput from original rnamediator np arrays
`get_rnamediator_np_array`()	get original RNAmediator numpy array output
`get_text`([nan, truncated])	get string of the unpaired probability file
`localize`(start, end)	trims the output (zero based)

Attributes

numpy array representation of lunpaired file

classmethod from_file(file_path: str): creates PLfoldOutput from a punpaired file

Parameters

Returns

classmethod from_numpy(array: numpy.ndarray): creates PLFoldOutput from np arrays

Parameters

Returns

classmethod from_rnamediator_numpy_output(file_path: str): creates PLfoldOutput from original rnamediator np arrays

Parameters

Returns

get_rnamediator_np_array() → numpy.ndarray: get original RNAmediator numpy array output

Returns

get_text(nan='NA', truncated=True) → str

get string of the unpaired probability file

Parameters

truncatedbool, optional
choose whether the starting # lines should be included in the string (default is True)

Returns