Package csb :: Package bio :: Package sequence :: Class SequenceCollection |
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# Class SequenceCollection

source code

                  object --+
                           |
        core.AbstractIndexer --+
                               |
    core.BaseCollectionContainer --+
                                   |
    core.ReadOnlyCollectionContainer --+
                                       |
                                      SequenceCollection

Represents a list of AbstractSequences.

Instance Methods
__init__(self, sequences) x.__init__(...) initializes x; see help(type(x)) for signature | source code
to_fasta(self, output_file) Dump the whole collection in mFASTA format. | source code
Inherited from `core.BaseCollectionContainer`: `__bool__`, `__contains__`, `__getitem__`, `__iter__`, `__len__`, `__nonzero__`, `__repr__` Inherited from `object`: `__delattr__`, `__format__`, `__getattribute__`, `__hash__`, `__new__`, `__reduce__`, `__reduce_ex__`, `__setattr__`, `__sizeof__`, `__str__`, `__subclasshook__`

Properties
Inherited from `core.BaseCollectionContainer`: `last_index`, `length`, `start_index` Inherited from `object`: `__class__`

Method Details

### __init__(self, sequences) (Constructor) | source code
x.__init__(...) initializes x; see help(type(x)) for signature Parameters: `items` - initialization list `type` - if defined, makes the container type-safe `start_index` - the index of the zero element Overrides: object.__init__ (inherited documentation)

### to_fasta(self, output_file) | source code
Dump the whole collection in mFASTA format. Parameters: `output_file` (str or stream) - write the output to this file or stream