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1.Overview

Applications

The DNAnexus platform acts in the capacity of a Plaform as a Service (PAAS) and as such offers a wider variety to functionality. This includes the ability to:

  1. Deploy custom tools, applications, and pipelines
  2. Run prebuilt pipelines
  3. Build pipelines from prebuilt components
  4. Manage the execution of applications via a Web Interface
  5. Submit and manage jobs via a command line interface
  6. Upload raw data and reference databases
  7. View and download the results of complex analysis pipelines

One group of workflows that require special consideration are those developed by the nf-core community. These pipelines address most of the more common NGS data analysis topics.

Current pipelines installed on the platforem address the following NGS data types (as well as many more)

  • RNA-Seq data
  • ChipSeq data
  • Variant calls for Whole Genome Sequencing (WGS)
  • Variant call for Whole Exome Sequencing

Additionally, the platform currently hosts prebuilt genomes and indices for both human (hGRC38, hg19) and mouse (mm10). (Additional, genome can be installed upon request).