dbGaPdb

A searchable database of sequencing and phenotype data

Hackathon Team: David McGaughey, Filip Cvetkovski, Michelle Miron, Robert Butler, Sean King, Luning Hoa, Sean Davis and Ben Busby

Intro

The Complex Phenotypes database is a relational database that enables users to find what data sets are available for download based on the phenotype and type of data they are interested in from NCBI's Sequence Read Archive and Genotypes and Phenotypes databases. These are the largest public repositories of phenotpye and sequencing data. However, currently finding data of interest by phenotype is challenging. Searchable Complex Phenotypes is a way to make metadata more easily accessible.

This repository contains a R package that allows you access all pulic metadata to explore what data is available. You can do this in two ways. One is to the query the database in R and second is to use a shiny app to query the database.

Example Query

Quick start

1. Query examples in R
2. shiny app via R studio or web

Web Query

Installation

Dependencies

Further Use