Python package for working with biological sequences from FASTA files.
Documentation: http://tinyfasta.readthedocs.org/en/latest/
Free software: MIT License
Features
Easy to use: intuitive API for parsing, searching and writing FASTA files
Lightweight: no dependencies outside Python’s standard library
Cross-platform: Linux, Mac and Windows are all supported
Works with with Python 2.7, 3.2, 3.3, and 3.4
Quick Guide
To install the TinyFasta package:
sudo pip install tinyfasta
To parse a FASTA file:
>>> from tinyfasta import FastaParser
>>> for fasta_record in FastaParser("tests/data/dummy.fasta"):
... if fasta_record.description.contains('seq1'):
... print(fasta_record)
...
>seq1|contains 2x78 A's
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
To create a FASTA record:
>>> from tinyfasta import FastaRecord
>>> sequence = "C" * 100
>>> fasta_record = FastaRecord.create("My Sequence", sequence)
>>> print(fasta_record)
>My Sequence
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
CCCCCCCCCCCCCCCCCCCC
1 maintainer
Metadata
1 maintainer
Release files for tinyfasta 0.1.0
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