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DNAnexus

Description

DNAnexus provides a secure cloud based platform for the analysis and sharing of next generation sequencing data. This resource allows simplified, secure access to the vast compute resources available via Amazon Web Services (AWS) and the Microsoft AZURE cloud. CCR is currently running a pilot program which allows CCR investigators access to this platform. This resource includes ≈200 prebuilt progams and workflows as well as many others built by the GAU team. DNAnexus can be utilized via either a user-friendly Web interface or through a command line interface. Less computer savvy people can use the Web interface while experienced computer users and bioinformaticists can interact with the platform through the command-line interface. The command-line interface allows for quick integration with local systems and the automated processing of large data sets. Beyond its extensive library of integrated tools and pipelines, the DNAnexus platform also allows the quick and efficient development of new analysis tools and the porting of existing pipelines.

The Genome Analysis Unit (GAU) has successfully used DNAnexus to empower several of its collaborators to analyse their own data using complicated (often custom built) workflows. If this is something you are intested in pursuing please contact Peter FitzGerald at fitzgepe@nih.gov.

DNAnexus has been used by BTEP for teaching bioinformatic tools and programming languages. BTEP uses pre-built teaching environments, which include all of the software needed for a lesson installed and ready to go. This allows lessons to progress seamlessly without worrying about errors due to software version incompatibility on local computers.

Recommendations

Things to Know

  • Several BTEP courses require participants to obtain a free DNAnexus user account. Obtain a free acount here.

  • CCR has established a pilot program to enable CCR researchers to use DNAnexus to process their own NGS data.

  • Some available workflows include RNA-Seq, DNA-Seq, and ChIP-Seq.

Input Data

Input data types will vary based on analysis objectives.

Output Data

Output data types will vary based on analysis objectives.

Access Information

While signing up for a DNAnexus account is free, there are usage costs associated with using the DNAnexus Cloud computing platform. However, OSTR has funding for the NCI DNAnexus Pilot program. To participate in this program, review the DNAnexus Account Instructions. Email us at ncibtep@nih.gov for more information.