tanglegram 0.0.1

tanglegram
==========
Uses scipy and matplotlib to plot simple tanglegrams.

## Installation
I recommend using [Python Packaging Index (PIP)](https://pypi.python.org/pypi) to install the package.
First, get [PIP](https://pip.pypa.io/en/stable/installing/) and then run in terminal:

`pip install git+git://github.com/schlegelp/tanglegram@master`

This command should also work to update the package.

**Attention**: on Windows, the dependencies (i.e. Numpy, Pandas and SciPy) will likely fail to install automatically. Your best bet is to get a Python distribution that already includes them (e.g. [Anaconda](https://www.continuum.io/downloads)).

If your default distribution is Python 2, you have to explicitly tell [PIP](https://pip.pypa.io/en/stable/installing/) to install for Python 3:

`pip3 install git+git://github.com/schlegelp/pymaid@master`

#### External libraries used:
Installing via [PIP](https://pip.pypa.io/en/stable/installing/) should install all external dependencies. You may run into problems on Windows though. In that case, you need to install dependencies manually, here is a list of dependencies (check out `install_requires` in [setup.py](https://raw.githubusercontent.com/schlegelp/PyMaid/master/setup.py) for version info):

- [Pandas](http://pandas.pydata.org/)
- [SciPy](http://www.scipy.org)
- [Numpy](http://www.scipy.org)
- [Matplotlib](http://www.matplotlib.org)

## Quickstart:

```python
import pandas as pd
import tanglegram.plot as tplot

# Generate two distance matrices and just switch labels in one
labelsA= ['A','B','C','D']
labelsB= ['B','A','C','D']
data = [1,.1,0,0],[.1,1,.5,0],[0,.5,1,0],[0,0,0,1]]

mat = pd.DataFrame([ data = data,
columns=labelsA,
index=labelsA)

mat = pd.DataFrame([ data = data,
columns=labelsB,
index=labelsB)

# Plot tanglegram
fig = tplot(mat,mat2)
```

## License:
This code is under GNU GPL V3