Contributions
Contributions are welcome!
Requirements
- numpy
- h5py
- scipy
- theano
- biopython
- keras
tensorflow may be additionally required if using Python 2 instead of Python 3.
On Windows, Visual Studio C++ is required. Microsoft Visual C++ 14.0 is required if using Python 3.5 or Microsoft Visual C++ 10.0 is required is Python 3.4.
Installation
Using Anaconda
conda create -n phenotypes python=3 numpy h5py scipy theano biopython
source activate phenotypes
pip install keras
Using pip
pip install -r requirements.txt
Depending on your environment you may have to pip install numpy before pip installing other packages. This will be improved if/when a setup script is created.
References
Sønderby, S. K., Sønderby, C. K., Nielsen, H. & Winther, O. Convolutional LSTM networks for subcellular localization of proteins. in Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) 9199, 68–80 (2015).
https://arxiv.org/abs/1503.01919