systems-microbiology-hiv
Machine learning and phylogenetics on HIV
MIT License
Stars
6
Ecosystems:
Jupyter Notebook
systems-microbiology-hiv
Machine learning and phylogenetics on HIV
Getting Started
- Download this repository as a Zip file.
- Unzip the folder.
- In your command prompt (Windows) or terminal (Mac/Linux), navigate your way to the unzipped folder.
- When inside the folder, type the command:
conda env create -f environment.yml. This will create a Python 3.5 environment that should house everything that's needed. - Activate the new environment.
- In Mac/Linux, type
source activate sysmicro - In Windows, type
activate sysmicro.
- In Mac/Linux, type
- Install
pymc3by using the command:pip install git+https://github.com/pymc-devs/pymc3. - Install
theanoby using the command:pip install theano. - Type in the following command:
jupyter notebook. Your browser window will open. - Click on the notebook "
Lecture - HIV Data Exploration (Student).ipynb". A new tab will open in your browser.
Troubleshooting
If you have an older installation of the Anaconda distribution, you might not have jupyter installed. To install it, run:
conda install jupyter
If you have other technical questions, email me at: ericmjl[at]mit[dot]edu.