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‎README.md

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netZooM is a MATLAB package of network methods.
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## Zoo animals
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PANDA, LIONESS, PUMA, SPIDER, and optPANDA.
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(gpu)PANDA, (gpu)LIONESS, PUMA, SPIDER, and optPANDA.
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## Quick guide
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`git clone https://github.com/netZoo/netZooM.git` into your local disk.

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# Sphinx build info version 1
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# This file hashes the configuration used when building these files. When it is not found, a full rebuild will be done.
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‎docs/_build/html/_sources/changelog.rst.txt

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Changelog
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==========
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* :feature:`-` added differential targeting tutorial
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* :release:`0.1.0 <2019-6-28>`
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* :feature:`-` Changelog added to the doc
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0.4.3 (2019-03-01)
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------------------
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- gpuPANDA and gpuLIONESS
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- gpuPANDA and gpuLIONESS tutorials
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0.4.2 (2019-01-09)
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------------------
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- optPANDA
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- optPANDA tutorial
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0.4.1 (2019-01-01)
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------------------
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- Cross-plateform haramonization of PANDA behavior.
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- Data processing was set to 'Union' by default.
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0.4.0 (2019-11-19)
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------------------
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- SPIDER
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0.3.0 (2019-11-17)
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------------------
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- PUMA
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- differential targeting tutorial
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- GRAND database tutorial
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0.2.0 (2019-11-13)
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------------------
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- LIONESS
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- PANDA tutorial
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- LIONESS tutorial
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0.1.0 (2019-5-28)
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------------------
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- Changelog added to the doc
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- PANDA

‎docs/_build/html/_sources/install/index.md.txt

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## Install
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- git clone https://github.com/netZoo/netZooM.git
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- `git clone https://github.com/netZoo/netZooM.git`
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- In MATLAB console, add netZooM to your path:
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- `addpath(genpath('netZooM'))`
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- In MATLAB console, add netZooM to your path through `addpath(genpath('netZooM'))`
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## Troubleshooting
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‎docs/_build/html/_sources/tutos/index.md.txt

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- [Reconstruction of gene regulatory networks using PANDA](https://github.com/netZoo/netZooM/tree/master/tutorials/panda)
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- [Generating single-sample gene regulatory networks using LIONESS](https://github.com/netZoo/netZooM/tree/master/tutorials/lioness)
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- [Differential targeting analysis using PANDA and LIONESS](https://github.com/netZoo/netZooM/tree/devel/tutorials/differential_targeting)
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- [Using GRAND database's API for reproducible network reconstruction](https://github.com/netZoo/netZooM/tree/devel/tutorials/grand_db)
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- [Accurate reconstruction of gene regulatory networks using optPANDA](https://github.com/netZoo/netZooM/tree/devel/tutorials/opt_panda)
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- [gpuPANDA and gpuLIONESS: Accelerated inference of gene regulatory networks using the Graphical Processing Unit](https://github.com/netZoo/netZooM/tree/devel/tutorials/gpu_panda_lioness)

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var DOCUMENTATION_OPTIONS = {
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VERSION: '0.1',
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VERSION: '0.2',
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<li class="toctree-l1"><a class="reference internal" href="tutos/index.html">Tutorials</a></li>
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</ul>
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<ul class="current">
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<li class="toctree-l1 current"><a class="current reference internal" href="#">Changelog</a></li>
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<li class="toctree-l1 current"><a class="current reference internal" href="#">Changelog</a><ul>
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<li class="toctree-l2"><a class="reference internal" href="#id1">0.4.3 (2019-03-01)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="#id2">0.4.2 (2019-01-09)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="#id3">0.4.1 (2019-01-01)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="#id4">0.4.0 (2019-11-19)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="#id5">0.3.0 (2019-11-17)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="#id6">0.2.0 (2019-11-13)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="#id7">0.1.0 (2019-5-28)</a></li>
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</ul>
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</li>
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<div class="section" id="changelog">
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<h1>Changelog<a class="headerlink" href="#changelog" title="Permalink to this headline"></a></h1>
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<div class="section" id="id1">
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<h2>0.4.3 (2019-03-01)<a class="headerlink" href="#id1" title="Permalink to this headline"></a></h2>
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<div class="section" id="Next release">
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<h2 style="margin-bottom: 0.3em;"><a class="reference external" href="https://github.com/netZoo/netZooM/tree/master">Next release</a></h2><ul class="simple">
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<li>[<span style="color: #40A056;">Feature</span>]<span>:</span><span> </span> added differential targeting tutorial</li>
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<li>gpuPANDA and gpuLIONESS tutorials</li>
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<li>gpuPANDA and gpuLIONESS</li>
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</ul>
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</div>
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</div>
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<div class="section" id="id2">
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<h2>0.4.2 (2019-01-09)<a class="headerlink" href="#id2" title="Permalink to this headline"></a></h2>
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<ul class="simple">
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<li>optPANDA</li>
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<li>optPANDA tutorial</li>
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</ul>
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</div>
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<div class="section" id="id3">
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<h2>0.4.1 (2019-01-01)<a class="headerlink" href="#id3" title="Permalink to this headline"></a></h2>
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<ul class="simple">
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<li>Cross-plateform haramonization of PANDA behavior.</li>
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<li>Data processing was set to ‘Union’ by default.</li>
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</ul>
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</div>
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<div class="section" id="id4">
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<h2>0.4.0 (2019-11-19)<a class="headerlink" href="#id4" title="Permalink to this headline"></a></h2>
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<ul class="simple">
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<li>SPIDER</li>
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</ul>
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</div>
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<div class="section" id="id5">
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<h2>0.3.0 (2019-11-17)<a class="headerlink" href="#id5" title="Permalink to this headline"></a></h2>
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<ul class="simple">
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<li>PUMA</li>
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<li>differential targeting tutorial</li>
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<li>GRAND database tutorial</li>
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</ul>
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</div>
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<div class="section" id="id6">
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<h2>0.2.0 (2019-11-13)<a class="headerlink" href="#id6" title="Permalink to this headline"></a></h2>
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<ul class="simple">
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<li>LIONESS</li>
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<li>PANDA tutorial</li>
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<li>LIONESS tutorial</li>
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</ul>
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</div>
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<div class="section" id="0.1.0">
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<h2 style="margin-bottom: 0.3em;"><a class="reference external" href="https://github.com/netZoo/netZooM/tree/0.1.0">0.1.0</a> <span style="font-size: 75%;">2019-6-28</span></h2><ul class="simple">
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<li>[<span style="color: #40A056;">Feature</span>]<span>:</span><span> </span> Changelog added to the doc</li>
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<div class="section" id="id7">
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<h2>0.1.0 (2019-5-28)<a class="headerlink" href="#id7" title="Permalink to this headline"></a></h2>
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<ul class="simple">
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<li>Changelog added to the doc</li>
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<li>PANDA</li>
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<li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a></li>
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<li class="toctree-l1"><a class="reference internal" href="changelog.html">Changelog</a><ul>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id1">0.4.3 (2019-03-01)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id2">0.4.2 (2019-01-09)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id3">0.4.1 (2019-01-01)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id4">0.4.0 (2019-11-19)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id5">0.3.0 (2019-11-17)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id6">0.2.0 (2019-11-13)</a></li>
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<li class="toctree-l2"><a class="reference internal" href="changelog.html#id7">0.1.0 (2019-5-28)</a></li>
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<div class="section" id="troubleshooting">

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