This brochure presents a sample of Berkeley Lab software tools that can accelerate discovery and hasten products-to-market in the biosciences. Some of this software is available open source and some through commercial licenses. Click on this brochure for more information about these software tools.

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Table of Contents

*open source

Imaging

BASTet and OpenMSI Arrayed Analysis Tools for Mass Spectrometry

SPECT: Software for Dynamic Imaging with Single-Photon Emission Computed Tomography Scanners

LABELIT: Software for Macromolecular Diffraction Data Processing

PHENIX: Software for Determining Macromolecular Structure Using Crystallographic or Cryo-EM Data

Omics

basecRAWller: Nanopore Sequencing Base Calling Software

MAGI: Metabolite, Annotation and Gene Integration System and Software*

OMG: Multi-Omics Data Library for Predictive Modeling*

EDD: Web-based Software for Biological Experimental Data Storage and Visualization*

DelPlasmid: Finding Plasmids with Deep Learning and Machine Learning*

Synthetic Biology

DIVA: DNA Design, Implementation, and Validation Automation Software

BOOST: Build Optimization Software Tools for DNA Sequence Design

SynTrack: DNA Assembly Workflow Management

ART: A Machine Learning Automated Recommendation Tool for Guiding Synthetic Biology

ClusterCAD: Computational Platform for Design of Chimeric Polyketide Synthase (PKS)*

ICE: Inventory of Composable Elements and Web of Registries, Bioparts Search Portal*

High Performance Computing

JAWS: Joint Genome Institute Analysis Workflow Service for Complex Computational Pipelines on Multiple Compute Resources*