Setting-up your environment
Please install the following software on your personal laptop before the
start of the course.
Anaconda and Jupyter notebook
Anaconda is an open-source python distribution
that bundles python3 along with a large number of useful python modules
such as SciPy, NumPy, or Pandas.
It also bundles other useful software such as the conda package manager (which allows easy installation of bioinformatics software) and Jupyter Notebook.
Anaconda is cross-plateform and available for both Windows and UNIX (Linux, MacOS) operating systems.
Jupyter Notebook is an open-source application that
runs locally in your web-browser and allows you to create documents that
contain both code and text annotations (in Markdown).
To install anaconda:
- go to https://www.anaconda.com/products/individual.
- download the version of anaconda matching your operating system.
- follow the installer's instructions.
To test whether your installation is working, try to launch Jupyter Notebook:
- UNIX: open a terminal and type
- Windows: in the start menu, search for "Jupyter Notebook (Anaconda)" and start the application.
Launching the application should open a new tab in your default web-browser
with the Jupyter Notebook launch page. From there you can browse your computer
for existing notebooks (
.ipynb files), or you can click on
to open a new empty notebook.
An introduction to Jupyter Notebook will be given at the start of the lecture,
so installing anaconda and checking that Jupyter Notebook is running is all you
need to do for now.