Installation¶

BiasAway is available on PyPi, through Bioconda, and the source code is available on bitbucket. BiasAway takes care of the installation of all the required python modules. If you already have a working installation of python, the easiest way to install the required python modules is by installing biasaway using pip.

If you are setting up Python for the first time, we recommend to install it using the Conda or Miniconda Python distribution. This comes with several helpful scientific and data processing libraries available for platforms including Windows, Mac OSX, and Linux.

You can use one of the following ways to install BiasAway.

Quick installation¶

Prerequisites¶

BiasAway requires the following Python modules:

biopython: https://biopython.org

numpy: https://numpy.org

matplotlib: https://matplotlib.org/

seaborn: https://seaborn.pydata.org/

Install biopython, numpy, matplotlib, and seaborn¶

BiasAway uses biopython, numpy, matplotlib, and seaborn you can install them using pip or conda.

Note

If you install using pip or bioconda prerequisites will be installed.

Install BiasAway using conda¶

BiasAway is available on Bioconda for installation via conda.

conda install -c bioconda biasaway

Install BiasAway using pip¶

BiasAway is available on PyPi for installation via pip.

pip install biasaway

Install BiasAway from source¶

You can install the development version by using git from our bitbucket repository at https://bitbucket.org/CBGR/biasaway.

Install development version from Bitbucket¶

If you have git installed, use this:

git clone https://bitbucket.org/CBGR/biasaway.git
cd biasaway
python setup.py sdist install