================
pattern_analysis
================
.. image:: https://img.shields.io/pypi/v/pattern_analysis.svg
:target: https://pypi.python.org/pypi/pattern_analysis
.. image:: https://img.shields.io/travis/ScienceComputing/pattern_analysis.svg
:target: https://travis-ci.com/ScienceComputing/pattern_analysis
.. image:: https://readthedocs.org/projects/pattern-analysis/badge/?version=latest
:target: https://pattern-analysis.readthedocs.io/en/latest/?version=latest
:alt: Documentation Status
.. image:: https://pyup.io/repos/github/ScienceComputing/pattern_analysis/shield.svg
:target: https://pyup.io/repos/github/ScienceComputing/pattern_analysis/
:alt: Updates
A package for analyzing patterns in biological data.
* Free software: MIT license
* Documentation: https://pattern-analysis.readthedocs.io.
Features
--------
* Count patterns of nucleotide interest in a genome sequence
* Generate the complement for a genome sequence
Usage
--------
.. code-block:: python
from pattern_analysis import pattern_analysis
# Estimate the number of patterns equal to "TGATCA" in the ori sequence
ori = "ATCAATGATCAACGTAAGCTTCTAAGCATGATCAAGGTGCTCACACAGTTTATCCACAACCTGAGTGGATGACATCAAGATAGGTCGTTGTATCTCCTTCCTCTCGTACTCTCATGACCACGGAAAGATGATCAAGAGAGGATGATTTCTTGGCCATATCGCAATGAATACTTGTGACTTGTGCTTCCAATTGACATCTTCAGCGCCATATTGCGCTGGCCAAGGTGACGGAGCGGGATTACGAAAGCATGATCATGGCTGTTGTTCTGTTTATCTTGTTTTGACTGAGACTTGTTAGGATAGACGGTTTTTCATCACTGACTAGCCAAAGCCTTACTCTGCCTGACATCGACCGTAAATTGATAATGAATTTACATGCTTCCGCGACGATTTACCTCTTGATCATCGATCCGATTGAAGATCTTCAATTGTTAATTCTCTTGCCTCGACTCATAGCCATGATGAGCTCTTGATCATGTTTCCTTAACCCTCTATTTTTTACGGAAGAATGATCAAGCTGCTGCTCTTGATCATCGTTTC"
pat = "TGATCA"
res = pattern_analysis.pattern_count(ori, pat)
print("A total of {} {} are found.".format(res, pat)) # Return "A total of 8 TGATCA are found."
Credits
-------
This package was created with Cookiecutter_ and the `audreyr/cookiecutter-pypackage`_ project template.
.. _Cookiecutter: https://github.com/audreyr/cookiecutter
.. _`audreyr/cookiecutter-pypackage`: https://github.com/audreyr/cookiecutter-pypackage
=======
History
=======
0.1.1 (2023-12-17)
------------------
* Restructure the pattern analysis package using cookiecutter-pypackage.
0.1.0 (2023-12-12)
------------------
* First release on PyPI.
Raw data
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