DeepTFactor

DeepTFactor running procedure

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Note: This source code was developed in Linux, and has been tested in Ubuntu 16.04 with Python 3.6.

1. Clone the repository

$ git clone https://bitbucket.org/kaistsystemsbiology/deeptfactor.git

2. Create and activate virtual environment

$ conda env create -f environment.yml
$ conda activate deeptfactor

3. To use GPU for the computation, install an appropriate version of pytorch (and cuda).

   • Please refer to <https://pytorch.org>

Example

• Run DeepTFactor

$ python tf_running.py -i ./Dataset/example_tf.fasta -o ./result -g cpu
$ python tf_running.py -i ./Dataset/example_tf.fasta -o ./result -g cuda:1

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