APPLICATIONS: Running large, complex computational workflows, pipelines (e.g., Broad Institute’s Cromwell) Data analysis workflows in High Performance Computing (HPC), large cluster, and cloud environments BENEFITS: Improves reusability and robustness of workflows/pipelines Allows for easier maintenance and modification Enables distribution of workflows … [Read more...] about Joint Genome Institute Analysis Workflow Service (JAWS) for Complex Computational Pipelines on Multiple Compute Resources 2020-090
Biotechnology
DelPlasmid: Finding Plasmids with Deep Learning and Machine Learning 2019-037
APPLICATIONS OF TECHNOLOGY: Identification of plasmids in assembled bacterial genomes BENEFITS: Recovery of plasmids from assembled bacterial genomes without any prior taxonomical knowledge with a low false positive rate BACKGROUND: Plasmids are extrachromosomal genetic elements that are an important driver of DNA exchange and genetic innovation in … [Read more...] about DelPlasmid: Finding Plasmids with Deep Learning and Machine Learning 2019-037
ClusterCAD: Computational Platform for Design of Chimeric Polyketide Synthase (PKS) enzymes 2017-101
APPLICATIONS OF TECHNOLOGY: Drug development Bioproducts Chemical Engineering BENEFITS: Saves time in developing novel or drop-in molecules using type I PKS Easily identify polyketide synthase (PKS) modules based either on amino acid sequence or on the chemical structure of the cognate polyketide intermediate More reliable construction of functional … [Read more...] about ClusterCAD: Computational Platform for Design of Chimeric Polyketide Synthase (PKS) enzymes 2017-101
SynTrack: DNA Assembly Workflow Management 2017-023
APPLICATIONS OF TECHNOLOGY: Management and tracking of DNA synthesis and assembly operations Integration of quality control outcomes and the status of construct deliverables for external users BENEFITS: System with a host of functions to track the DNA build process: Generating Echo pooling instructions based on plate maps Bulk updating of colony or PCR … [Read more...] about SynTrack: DNA Assembly Workflow Management 2017-023
Experiment Data Depot (EDD): Biological Experimental Data Storage and Visualization Web-based Software 2016-186
APPLICATIONS OF TECHNOLOGY: Biological experiment data storage, sharing, and visualization BENEFITS: Provides a novel and convenient way to store a variety of data types, visualize these data, and export them in a standardized fashion for use with predictive algorithms TECHNOLOGY OVERVIEW: Researchers at Berkeley Lab have developed the Experiment Data Depot … [Read more...] about Experiment Data Depot (EDD): Biological Experimental Data Storage and Visualization Web-based Software 2016-186