rawk 0.1.0

Metabolic pathway local enrichment analysis via random walks on metabolic reaction network

Rawk

A python package for metabolic pathway local enrichment analysis via random walks on metabolic reaction network.

Install

Note that Rawk currently can only be installed from the source files in this repository.

Rawk will be available on PyPI soon.

Documentation

Tutorials

The tutorials of Rawk are in the docs/tutorials folder, which contains the following tutorials:

• construct_recon3d_mrn.md: Construct a metabolic reaction network from a genome scale metabolic model.
• example_mouse_data_analysis.md: Run Rawk standard analysis workflow on an example mouse dataset.
• example_human_data_analysis.md: Run Rawk standard analysis workflow on an example human dataset.

API reference

The API reference files of Rawk are in docs/api_reference. The API reference files were generated from the package docstrings. The docstrings can also be accessed using help in python interpreter. For example, help(rawk.Rawk) shows the documentation of the Rawk class.

Troubleshooting

If you encounter any error related to tkinter multi-threading, try rerunning with parameters set to use only one CPU core.

Notice about license

This project is released under a Non-Commercial Research License. For commercial use, please contact [e-mail] for licensing terms.