HPG Pore README

Welcome to HPG Pore !

HPG Pore is a toolkit to explore and analyze nanopore sequencing data that can run both on a single computer and on the Hadoop distributed computing framework.

HPG Pore allows efficient management of huge amounts of data, thus constituting a practical solution for the near future as well as a promising model for the development of new tools to deal with genomic big data.

CONTACT

You can contact any of the following developers:

* Joaquín Tárraga (joaquintarraga@gmail.com)
* Susi Gallego (agallego@cipf.es)
* Ignacio Medina (im411@cam.ac.uk)

REQUIREMENTS

To build the HPG Pore application you need to install in your system:

* Java
* Maven
* gcc
* zlib
* Hadoop (if you want HPG Pore to run on a Hadoop cluster)

DOWNLOAD and BUILDING

HPG Pore has been opened to the community and released in GitHub, so you can download by invoking the following commands:

$ git clone https://github.com/opencb/hpg-pore.git

Finally, use the script build.sh to build the HPG Pore application:

$ cd hpg-pore
$ ./build.sh

RUNING

For command line options invoke:

$ ./hpg-pore.sh -h

A tutorial and further documentation are available at http://github.com/opencb/hpg-pore/wiki