As per our Downloads Page page, we generally
recommend using Python’s package manager
pip to install Biopython:
pip install biopython
However, this is not the only option and a separate packaging system may be more appropriate for your system.
conda install -c conda-forge biopython
conda update -c conda-forge biopython
We deliberately recommend using Biopython from the conda-forge channel, as this is usually up to date and covers Windows, Mac OS X and Linux. The default Conda channel does have Biopython, but is often out of date.
Note Conda is available on Windows, Mac OS X and Linux, and covers far more than just Python.
Although we would generally recommend
pip, most Linux systems will
have a Biopython package available - it may however by a little out of
You should be able to install Biopython and its dependencies using the Synaptic GUI tool (on the main menu under System / Administration / Synaptic Package Manager), or at the command line using:
sudo apt-get install python-biopython
If you want the documentation and unit tests,
sudo apt-get install python-biopython-doc
And if you want to use BioSQL,
sudo apt-get install python-biopython-sql
However, this will probably not be the latest release (see Ubuntu listing here, and Debian listing here). If you want the latest version of Biopython, you will need to install it from source. However, you should be able to automatically install the build dependencies with the following command:
sudo apt-get build-dep python-biopython
Biopython is in the official Archlinux repository as python-biopython (for Python 3) or python2-biopython (for Python 2) and can be installed using pacman:
pacman -S python2-biopython
Or, for Python 3:
pacman -S python-biopython
yum install python-biopython
yum install python3-biopython
or via one of the GUI package management systems such as pirut and PackageKit (available in F-9 and later).
Gentoo’s portage tree contains an ebuild (sci-biology/biopython) which builds from source. To install it, open a terminal as root and run:
emerge -va biopython
The most easy way of installing Biopython in FreeBSD is through the Ports Collection. If you’re new to this procedure please take a look at this document. Supposing that you’re familiar with this method and that you have an up-to-date ports tree, all you need to do is to execute the following commands as root:
cd /usr/ports/biology/py-biopython make install clean
This should automatically fetch and install Biopython (as well as its necessary dependencies).