README.md

# WiNNie
Weighted motif enrichment analysis using digital genomic footprinting scores

## Getting started
To set up WiNNie for a run, please make sure you have installed [CONDA](https://github.com/conda/conda).We are using a conda environment to install all needed dependencies.

Installation
-------------
1. Clone the directory
```bash
git clone https://github.com/petrokvitka/WiNNie
```
2. Switch to the directory
```bash
cd WiNNie
```
3. Create the needed environment from the file tfbs.yaml
```bash
conda env create --file winnie.yaml
```
4. Activate the environment
```bash
source activate winnie
```
5. You are ready to use the WiNNie! To learn how to use TFBS scan, just type 
```bash
python winnie.py -h
```