Package csb :: Package bio :: Package sequence :: Class SequenceAlignment

Class SequenceAlignment

       object --+    
                |    
AbstractAlignment --+
                    |
                   SequenceAlignment

Known Subclasses:

hmm.HHpredHitAlignment

Multiple sequence alignment. See AbstractAlignment for details.

Nested Classes
Inherited from `AbstractAlignment`: `__metaclass__`

Instance Methods

Inherited from AbstractAlignment: __getitem__, __init__, __iter__, add, format, gap_at, subregion

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __new__, __reduce__, __reduce_ex__, __repr__, __setattr__, __sizeof__, __str__, __subclasshook__

Static Methods

SequenceAlignment

parse(string, strict=True)
Create a new SequenceAlignment from an mFASTA string.

source code

Class Variables
	__abstractmethods__ = `frozenset([])`

Properties

Inherited from AbstractAlignment: columns, length, rows, size

Inherited from object: __class__

Method Details

parse(string, strict=True)
Static Method

source code

Create a new SequenceAlignment from an mFASTA string.

Parameters:

string (str) - MSA-formatted string
strict (bool) - see AbstractAlignment

Returns: SequenceAlignment

Class SequenceAlignment

parse(string, strict=True) Static Method

parse(string, strict=True)
Static Method