Installation

To install the core (“lite”) version of xlmhglite: .. code-block:: bash

$ pip install xlmhglite

To install the complete version of xlmhglite (including the plotting functionality): .. code-block:: bash

$ pip install xlmhglite[‘all’]

Getting started

The xlmhglite package provides two functions (one simple and more more advanced) for performing XL-mHG tests. These functions are documented in the User Manual. Here’s a quick example using the “simple” test function:

import xlmhglite
stat, cutoff, pval = xlmhglite.xlmhg_test(v, X, L)

Where: v is the ranked list of 0’s and 1’s, represented by a NumPy array of integers, X and L are the XL-mHG parameters, and the return values have the following meanings:

• stat: The XL-mHG test statistic

• cutoff: The cutoff at which XL-mHG test statistic was attained

• pval: The XL-mHG p-value

XL-mHG Lite Documentation

Please refer to the XL-mHG User Manual.

Citing XL-mHG

If you use the XL-mHG test in your research, please cite Eden et al. (PLoS Comput Biol, 2007) and Wagner (PLoS One, 2015).

Copyright and License

Copyright (c) 2015-2019 Florian Wagner

Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:

* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.

* Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.

* Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.

THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
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IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
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1.1.1 (2024-06-30)

xlmhglite now runs on numpy version 2 and above.

1.1.0 (2023-06-11)

This version improves clarity of warning messages and addresses some additional bugs. Moreover, the project has been transitioned to use pyproject.toml and setup.cfg, and old code was cleaned up for better maintainability.

1.0.1 (2023-06-11)

Minor patch addressing installation issues.

1.0.0 (2023-06-10)

First stable release.