1218143
doi
10.5281/zenodo.1218143
oai:zenodo.org:1218143
ljvmiranda921/gym-lattice: Major Release (v0.1.0)
Lester James Validad Miranda
Waseda University
url:https://github.com/ljvmiranda921/gym-lattice/tree/v0.1.0
info:eu-repo/semantics/openAccess
Other (Open)
reinforcement learning
protein folding problem
open source software
<p>Major Release (v0.1.0)</p>
<p>Gym-lattice is an HP 2D Lattice Environment with a Gym-like API for the protein folding problem.</p>
<p>This is a Python library that formulates Lau and Dill's (1989) hydrophobic-polar two-dimensional lattice model as a reinforcement learning problem. It follows OpenAI Gym's API, easing integration for reinforcement learning solutions.</p>
<p>Features</p>
<ul>
<li>OpenAI Integration: uses Gym's API to ease compatibility to reinforcement learning solutions.</li>
<li>Lattice 2D Environment: implements Dill and Lau's two-dimensional lattice as an RL problem.</li>
<li>Command-line rendering environment: the method <code>render()</code> draws the chain on the command-line.</li>
</ul>
<p>Additionally, there is an option to set the penalty parameters for training the agent, this includes:</p>
<ul>
<li>Collision penalty (<code>collision_penalty</code>): accounts for the time whenever the agent decides to assign a molecule to an already-occupied space; and</li>
<li>Trap penalty (<code>trap_penalty</code>): induces heavy deductions whenever the agent traps itself and cannot accomplish the task anymore.</li>
</ul>
<p>Tests</p>
<ul>
<li>Error-handling: all public-facing methods now use <code>Exceptions</code> instead of <code>asserts</code> when catching errors.</li>
<li>Testing with pytest and tox: unit-testing is being done with <code>pytest</code> and <code>tox</code>.</li>
</ul>
Zenodo
2018-04-14
info:eu-repo/semantics/other
1214967
v0.1.0
1579937041.9307
49305
md5:4a87c6e5aba51083c994281b23b66bbc
https://zenodo.org/records/1218143/files/ljvmiranda921/gym-lattice-v0.1.0.zip
public
https://github.com/ljvmiranda921/gym-lattice/tree/v0.1.0
Is supplement to
url
10.5281/zenodo.1214967
isVersionOf
doi