Skip to main content

Network Assisted Genomic Association

Project description

Network Assisted Genomic Analysis (NAGA)

Network Assisted Genomic Analysis(NAGA) re-prioritizes significant single nucleotide polymorphisms (SNPs) to genes using network diffusion methods including random walk and heat diffusion.

A companion website and REST API can be found at


A readthedocs page will be coming soon! In the mean time, you can view the documentations by building the sphinx documentation in the docs directory. Simply run the following in the docs folder

make docs

and open the index.html in the docs/build/html directory.


It is recommended that NAGA be run under Anaconda with python-igraph manually installed using conda and to create a new conda environment

To create a new conda environment and activate it:

conda create -n nagaenv
source activate nagaenv

If you would like to use naga in a Jupyter Notebook, you will need to add the Jupyter kernel. To do so:

# Make sure to activate the environment first!
conda install ipykernel # or pip install ipykernel
python -m ipykernel install --user --name nagaenv --display-name "Python (Naga)"

To install python-igraph via conda:

conda install -c conda-forge python-igraph

To install NAGA via pip:

pip install naga-gwas


notebooks/tutorial.ipynb demonstrates how to use this package once it is installed.

Citing NAGA

Publication to come…


0.4.2.post2 (2019-01-30)

  • Added instructions to add Jupyter kernel

0.4.1.post1 (2019-01-24)

  • Added link to tutorial notebook in long description

0.4.1 (2019-01-09)

  • First release on PyPI

Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

naga-gwas-0.4.1.post2.tar.gz (16.6 kB view hashes)

Uploaded source

Built Distribution

naga_gwas-0.4.1.post2-py3-none-any.whl (18.9 kB view hashes)

Uploaded py3

Supported by

AWS AWS Cloud computing Datadog Datadog Monitoring Fastly Fastly CDN Google Google Object Storage and Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page