Metadata-Version: 2.1
Name: Augusta
Version: 1.0.2
Summary: Python package for inference of the gene regulatory network and the boolean network using RNA-Seq data.
Home-page: https://github.com/JanaMus/Augusta
Author: Jana Musilova, Zdenek Vafek, Karel Sedlar
Author-email: musilovajana@vut.cz
License: MIT
Keywords: Computational biology,Bioinformatics,RNA-Seq,mutual information,database,Boolean network,Gene Regulatory network,SBML
Classifier: Programming Language :: Python :: 3
Classifier: License :: OSI Approved :: MIT License
Classifier: Operating System :: OS Independent
Classifier: Development Status :: 4 - Beta
Requires-Python: >=3, <3.9
License-File: LICENSE

Augusta
==========

Python package: From RNA-Seq to the Boolean Network through the Gene Regulatory Network

Documentation and tutorials are available at `augusta.readthedocs.io <https://augusta.readthedocs.io>`_

Quick Guide
----------------

**Installation:**

.. code-block::

   $ pip3 install Augusta

Dependencies:

- Python 3, up to 3.8
- Docker

**Usage:**

.. code-block:: 

   $ python3
   >>> import Augusta
   
GRN and BN inference using RNA-Seq:

.. code-block:: 

   >>> Augusta.RNASeq_to_SBML(count_table_input, promoter_length, genbank_file_input, normalization_type)

GRN inference using RNA-Seq:

.. code-block:: 

   >>> GRN = Augusta.RNASeq_to_GRN(count_table_input, promoter_length, genbank_file_input, normalization_type)


BN inference using GRN:

.. code-block:: 

   >>> Augusta.GRNtoBN(GRN_input, promoter_length, genbank_file_input, add_dbs_info)


