neteval 0.2.1

Package for standardization and evaluation of biological networks

Network Evaluations Tools v2

Pyhton package for processing and evaluation biological networks. All included analysis tasks are described in Wright, SN., et al. State of The Interactomes: an evaluation of molecular networks for generating biological insights.

Free software: MIT license

Installation

To install the package, run the following command:

pip install neteval

To install the package from source, clone the repository and run the following command:

git clone https://github.com/sarah-n-wright/Network_Evaluation_Tools
cd Network_Evaluation_Tools
make dist
pip install dist/netevalcmd*whl

For example usage of command line scripts see Example Usage. For example usage of all other funcitonality see State of the Interactomes Notebooks.

Dependencies

• goatools >=1.3.1

• hidef >=1.1.5

• httplib2 >=0.20.2

• matplotlib >=3.5.0

• mygene >=3.2.2

• ndex2 >=3.5.0

• networkx >=2.6.3,<3.0

• numpy >=1.21.4

• obonet >=1.0.0

• pandas >=1.3.4,<2.0

• requests >=2.26.0

• scikit-learn >=1.0.1

• scipy >=1.7.2

• seaborn >=0.13.0

• statsmodels >=0.13.5

• tqdm >=4.62.3

Compatibility

• Python 3.10+

Citing neteval

If you use neteval in your research, please cite the following publication:

Wright, SN., et al. State of The Interactomes: an evaluation of molecular networks for generating biological insights.

Credits

This package was created with Cookiecutter and the audreyr/cookiecutter-pypackage project template.

History

0.1.0 (2023-03-22)

• First release on PyPI.