Genomic infrastructure for on-site or cloud-based dna and rna processing and analysis

A non-transitory computer-readable medium storing software comprising instructions executable by one or more computers which, upon such execution, cause the one or more computers to perform operations for hardware-accelerated execution of a genomic data processing pipeline based on one or more user-selectable options presented via a graphical user interface, the operations comprising:

• obtaining, by one or more computers, first data representing a selection of one or more of a plurality of user-selectable options submitted via a graphical user interface, wherein one or more of the plurality of user-selectable options identify a particular genomic data processing pipeline;
• configuring, using an application programming interface executed by the one or more computers, an integrated circuit to perform one or more hardware accelerated steps of a primary, secondary, and/or tertiary processing protocol of the particular genomic data processing pipeline;
• obtaining, by the one or more computers, second data representing a set of genomic data or a set of data derived from genomic data;
• instructing, by the one or more computers, the configured integrated circuit to execute a genomic processing operation of the particular genomic data processing pipeline on the obtained second data to generate result data;
• and
• providing, by the one or more computers, output data that is based on the result data,
• wherein the integrated circuit is formed of a set of hardwired digital logic circuits interconnected by physical electrical interconnects, the set of hardware digital logic circuits arranged as a set of processing engines, each processing engine being formed of a subset of the hardwired digital logic units.

A system, comprising:

• one or more computers and one or more storage devices storing instructions that are operable, when executed by the one or more computers, to cause the one or more computers to perform operations for hardware-accelerated execution of a genomic data processing pipeline based on one or more user-selectable options presented via a graphical user interface, the operations comprising:
• obtaining, by one or more computers, first data representing a selection of one or more of a plurality of user-selectable options submitted via a graphical user interface, wherein one or more of the plurality of user-selectable options identify a particular genomic data processing pipeline;
• configuring, using an application programming interface executed by the one or more computers, an integrated circuit to perform one or more hardware accelerated steps of a primary, secondary, and/or tertiary processing protocol of the particular genomic data processing pipeline;
• obtaining, by the one or more computers, second data representing a set of genomic data or a set of data derived from genomic data;
• instructing, by the one or more computers, the configured integrated circuit to execute a genomic processing operation of the particular genomic data processing pipeline on the obtained second data to generate result data;
• and
• providing, by the one or more computers, output data that is based on the result data,
• wherein the integrated circuit is formed of a set of hardwired digital logic circuits interconnected by physical electrical interconnects, the set of hardware digital logic circuits arranged as a set of processing engines, each processing engine being formed of a subset of the hardwired digital logic units.