APPLICATIONS: Nanopore sequencing (i.e. significantly more accurate base caller for nanopore data) BENEFITS: Streaming base calling Base calling from information-rich raw signal BACKGROUND: Nanopore applications require base calling. Current nanopore base calling software applications employ the Viterbi algorithm, which requires the whole sequence to … [Read more...] about basecRAWller: Nanopore Sequencing Base Calling Software 2017-075
DIVA: DNA Design, Implementation, and Validation Automation Software 2021-102
APPLICATIONS: DNA design, DNA construction, synthetic biology, engineering biology, efficiency metric tracking BENEFITS: Provides a collaborative web-based graphical user interface supporting and tracking DNA design and construction. Interfaces with other related enabling software to offer additional functionality and reduce friction for the … [Read more...] about DIVA: DNA Design, Implementation, and Validation Automation Software 2021-102
Multi-Omics Data Library for Predictive Modeling 2021-007
APPLICATIONS: Predictive modeling for bioengineering and synthetic biology BENEFITS: Enables accurate testing of biological computational and algorithmic tools Provides reliable synthetic biological data BACKGROUND: Synthetic biology cannot yet fulfill its potential due to the inability to predict the behavior of biological systems. Computational tools … [Read more...] about Multi-Omics Data Library for Predictive Modeling 2021-007
Joint Genome Institute Analysis Workflow Service (JAWS) for Complex Computational Pipelines on Multiple Compute Resources 2020-090
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
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