Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce.

ABSTRACT:

Motivation

Public archives contain thousands of trillions of bases of valuable sequencing data. More than 40% of the Sequence Read Archive is human data protected by provisions such as dbGaP. To analyse dbGaP-protected data, researchers must typically work with IT administrators and signing officials to ensure all levels of security are implemented at their institution. This is a major obstacle, impeding reproducibility and reducing the utility of archived data.

Results

We present a protocol and software tool for analyzing protected data in a commercial cloud. The protocol, Rail-dbGaP, is applicable to any tool running on Amazon Web Services Elastic MapReduce. The tool, Rail-RNA v0.2, is a spliced aligner for RNA-seq data, which we demonstrate by running on 9662 samples from

SUBMITTER: Nellore A 

PROVIDER: S-EPMC4978928 | biostudies-literature | 2016 Aug

REPOSITORIES: biostudies-literature