The official Python interface to the g:Profiler [1] toolkit for enrichment analysis of functional (GO and other) terms. Note that this package provides a command-line tool, originally developed for inclusion into Galaxy [6] workflows; you may also wish to consider the third-party package [7] if you need to integrate g:Profiler analysis into a Python application.
Installation on Linux using pip
The pip tool [4] is the recommended method of installing Python packages.
Optionally create a virtual environment [2]:
$ virtualenv2 myenv $ source myenv/bin/activate
Install the software with pip, see [3] for instructions:
$ pip install gprofiler-official
Make sure that the installed gprofiler.py script is on your $PATH. When using a virtual environment as shown above, this should happen automatically.
Run an example query:
$ gprofiler.py -o scerevisiae "swi4 swi6"
For detailed usage instructions, see:
$ gprofiler.py --help
Installation on Linux using the tarball
You may simply download the tarball from gprofiler-official PyPI page [5], extract it and use the gprofiler.py script without installation. The script is designed to be lightweight and not require any 3rd party modules. For detailed usage instructions, see:
$ gprofiler.py --help
Installation on other platforms
Please see [3] for package installation instructions on various platforms.
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Source Distribution
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