ePGA

Working installation: http://www.epga.gr/

ePGA is comprised by two different services: Explore and Translate.

Explore:

• Receive personalized recommendations based on gene-drug-phenotype associations.
• Browse the state of the art pharmacogenomics knowledge on gene-drug-phenotype associations.

Translate:

• Upload individual genotypes and receive a report on their phenotypes for all known pharmacogenes.
• Browse pharmacogenomics summary data on a set of genotypes.

These are two independent web services, although in order to get full functionality both should be running.

LICENSE: GNU GENERAL PUBLIC LICENSE, Version 3

Explore Installation

The ePGA explore service is a django app that is located on the ePGA folder. This repo includes an example project called 'main'. To test the installatio run:

python manage.py runserver 0.0.0.0:8000

Translation Installation

The Translation service of ePGA is a shiny web application. To install, make sure that the following packages are installed in R: shiny, shinyBS, rmarkdown, doSNOW, gdata, knitr.

Also the followig biocLite packages are necessary: VariantAnnotation

A suitable latex environment should also be installed. For example miktext in Windows, or standard latex on Linux.

Edit: Translation/translation.r file and set the desired IP and port values:

runApp(host="0.0.0.0",port = 8080)

Edit the file ePGA/templates/ePGA/translate.html and insert the same values in the line:

<iframe id="example1" src="http://0.0.0.0:8080/" style="border: none; width: 1350px; height: 850px" frameborder="0"  scrolling="yes" align="center"></iframe>

Start with:

/usr/bin/R CMD BATCH ./translation.r

Or from R:

source('translation.r')

Docker

Docker files for explore and translate are available.

Contact

Development

• Alexandros Kanterakis
• Evgenia Kartsaki

Supervision

• Patrinos George
• Potamias George