FCNGRU

FCNA

Locating Transcription factor binding sites (TFBSs) by fully convolutional network Requirements

Pytorch 1.1
Python 3.6
CUDA 9.0
Python packages: biopython, sklearn

Data preparation

(1) Downloading 45 in invitro from The UniPROBE database is available at http://uniprobe.org , and put it into /your path/invitro/.

(2) Pre-processing datasets.

Usage:

data_normal.py

then

bash process.sh <data path>

Implementation

Running FCNGRU

Usage:

bash run.sh <data path>

Predicting motifs

Usage:

bash motif.sh <data path> <trained model path>