NDEx2 Python Client

Overview

The NDEx2 Python Client provides methods to access NDEx via the NDEx REST Server API. As well as methods for common operations on networks via the NiceCXNetwork class.

Dependencies

• six

• ijson

• requests

• requests_toolbelt

• networkx

• urllib3

• pandas

• enum34 (Python < 3.4)

• numpy

• enum (Python 2.6 & 2.7)

Compatibility

Python 3.5+

Note

Python < 3.5 may have some issues

Installation

The NDEx2 Python Client module can be installed from the Python Package Index (PyPI) repository using PIP:

pip install ndex2

If you already have an older version of the ndex2 module installed, you can use this command instead:

pip install --upgrade ndex2

Resources

• The NDEx2 Python Client documentation is available on Read the Docs.

• Please refer to our Jupyter Notebook Tutorials GitHub repository for code examples to work with networks using the NDEx2 Python Client and NiceCX object class.

License

See LICENSE.txt

Contents:

• Installation
  • From Pypi
  • Stable release
  • From sources
• Quick Tutorial
  • Download network from NDEx
  • Upload new network to NDEx
  • Add nodes, edges, and attributes to network
  • Build a lookup table for node names to node ids
  • More Tutorials and Examples
• Reference
  • CX2
  • NiceCXNetwork
  • Creating NiceCXNetwork objects
  • Converting NiceCXNetwork objects to other formats
  • Ndex2 REST client
  • Constants
  • Miscellaneous
  • Exceptions
• License
• History
  • 3.6.0 (2023-11-14)
  • 3.5.1 (2023-04-11)
  • 3.5.0 (2022-06-28)
  • 3.4.0 (2021-05-06)
  • 3.3.3 (2021-04-22)
  • 3.3.2 (2021-04-13)
  • 3.3.1 (2019-09-23)
  • 3.3.0 (2019-09-11)
  • 3.2.0 (2019-04-23)
  • 3.1.0a1 (2019-03-20)
  • 3.0.0a1 (2019-02-11)
  • 2.0.1 (2019-01-03)

Indices and tables

• Index

• Module Index

• Search Page