.. PyPhyloGenomics documentation master file, created by sphinx-quickstart on Mon Mar 4 17:35:27 2013. You can adapt this file completely to your liking, but it should at least contain the root `toctree` directive. ============================================= Welcome to PyPhyloGenomics's documentation! ============================================= Introduction ============ **PyPhyloGenomics** is a Python toolkit for developing phylogenomic markers in novel species for Next Generation sequence data. **Developers:** * Carlos Peña (email: carlos.pena@utu.fi) * Victor Solis * Pavel Matos * Chris Wheat **It includes tools for:** * discovery of homologous genes from species genomes. * primer design. * analysis of Next Generation Sequencing data, and * gene sequences assembly. Download ======== Download the source code from `github `_. Documentation ============= .. toctree:: :maxdepth: 2 :numbered: getting-started ngs_analysis .. automodule:: OrthoDB :members: .. automodule:: BLAST :members: .. automodule:: MUSCLE :members: .. automodule:: NGS :members: Indices and tables ================== * :ref:`genindex` * :ref:`modindex` * :ref:`search`