RepSequence¶

class RepSequence(sequences, **kwargs)[source]¶

An essential class for handling feature sequence data.

Constructor for RepSequence

Parameters

sequences (Union[str, pmaf.sequence._multiple._multiple.MultiSequence, pandas.core.frame.DataFrame, pandas.core.series.Series]) – Sequence data
kwargs (Any) – Compatibility

Return type

Attributes

`controller`	Active essentials controller instance.
`data`	`pandas.DataFrame` with sequence data
`is_buckled`	Is current essentials instance is mounted or not.
`is_mounted`	True if current essentials instance is mounted or not.
`metadata`	The essential instance metadata.
`name`	The essential instance name.
`shape`	Return the shape/size of the essential instance.
`xrid`	Feature identifiers.

Methods

`copy`()	Copy of the instance.
`export`(output_fp, *args[, _add_ext])	Exports the FASTA sequences into the specified file.
`get_feature_ids`([dtype])	This function and its sample twin is a rescue method to fix RepPhylogeny index problem.
`get_subset`([rids])	Get subset of the `RepSequence`.
`to_multiseq`()	Creates an instance of `MultiSequence` containing sequences.