Deep Reinforcement Learning for Optimal Experimental Design in Biology
RED does not need to be installed to run the examples
To use the package within python scropts, RED must be in PYTHONPATH.
To add to PYTHONPATH on a bash system add the following to the ~/.bashrc file
export PYTHONPATH="${PYTHONPATH}:<path to RED root dir>"Standard python dependencies are required: numpy, scipy, matplotlib. TensorFlow is required). Instructions for installing 'TensorFlow' can be found here:
https://www.tensorflow.org/install/
Code files can be imported into scripts, ensure the RED directory is in PYTHONPATH and simply import the required RED classes. See examples.
To run examples found in RED_master/examples from the command line, e.g.:
$ python train_RT3D_prior.py The examples will automatically save some results in the directory:
The main classes are the continuous_agents and OED_env, see examples for how to use these:
The continuous_agents.py file can be imported and used on any RL task.
from RED.agents.continuous_agents import RT3D_agentContains the environments used for RL for OED. Can be imported and initialised with any system goverened by a set of DEs
from RED.environments.OED_env import OED_env