Metadata-Version: 2.1
Name: propythia
Version: 2.0.0
Summary: propythia - automated platform for the classification of peptides/proteins using machine learning
Home-page: https://github.com/BioSystemsUM/propythia
Author: Ana Marta Sequeira
Author-email: anamartasequeira94@gmail.com
License: GNU General Public License v3
Keywords: machine learning deep learning classification proteins
Platform: UNKNOWN
Classifier: Development Status :: 4 - Beta
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Intended Audience :: Science/Research
Classifier: Programming Language :: Python :: 3.7
Classifier: License :: OSI Approved :: GNU General Public License v3 (GPLv3)
Classifier: Topic :: Software Development :: Libraries :: Python Modules
Description-Content-Type: text/markdown
Requires-Dist: numpy
Requires-Dist: scipy
Requires-Dist: pandas
Requires-Dist: matplotlib
Requires-Dist: sklearn
Requires-Dist: biopython
Requires-Dist: tensorflow
Requires-Dist: Keras
Requires-Dist: umap

|License| |PyPI version| |RTD version|

ProPythia
============

*ProPythia* (platform for the classification of peptides/proteins using machine and deep learning) is a Python generic modular
semi-automated platform containing functions for the classification of proteins based on their physicochemical properties
using ML and DL. ProPythia facilitates the major tasks of ML and includes modules to read and alter sequences, calculate several
types of protein descriptors, pre-process datasets, execute feature selection and dimensionality reduction, visualization
of t-SNE and UMAP, perform clustering, train and optimize ML and DL models and make predictions with different algorithms.
ProPythia has an adaptable modular architecture being a versatile and easy-to-use tool to apply ML/DL analysis over protein
sequences.

It was tested on the classification of membrane active antimicrobial peptides and enzymes, available in folder examples.

![plot](docs/plot.png)

Documentation
~~~~~~~~~~~~~
Documentation available at


Instalation from PyPI (stable releases)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

pip install propythia


Credits and License
~~~~~~~~~~~~~~~~~~~

Developed at the Centre of Biological Engineering, University of Minho

Please refer to this work through this publication by Ana Marta Sequeira, Diana Lousa, Miguel Rocha :

- Sequeira A.M., Lousa D., Rocha M. (2021) ProPythia: A Python Automated Platform for the Classification of Proteins Using
Machine Learning. Practical Applications of Computational Biology & Bioinformatics, 14th International Conference (PACBB 2020).
PACBB 2020. Advances in Intelligent Systems and Computing, vol 1240. Springer, Cham. https://doi.org/10.1007/978-3-030-54568-0_4

Released under the GNU Public License (version 3.0).


.. |License| image:: https://img.shields.io/badge/license-GPL%20v3.0-blue.svg
   :target: https://opensource.org/licenses/GPL-3.0
.. |PyPI version| image:: https://badge.fury.io/py/propythia.svg
   :target: https://badge.fury.io/py/propythia
.. |RTD version| image:: https://readthedocs.org/projects/propythia/badge/?version=latest&style=plastic
   :target: https://propythia.readthedocs.io/

