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 http://nbgwas.ucsd.edu/.
Documentation
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.
Installation
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
To install python-igraph via conda:
conda install -c conda-forge python-igraph
To install NAGA via pip:
pip install naga-gwas
Tutorial
notebooks/tutorial.ipynb demonstrates how to use this package once it is installed.
Citing NAGA
Publication to come…
History
0.4.1 (2019-01-09)
First release on PyPI
Project details
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