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A first look at GATK4 on the Seven Bridges Platform

Nick

Genomics, Platform

One of the big take-away messages from the Bio-It World Conference this year was the Broad Institute’s announcement that they plan to fully open source their GATK4 software. By transitioning to a BSD 3-Clause licence, GATK4 becomes fully open for commercial use without a separate commercial licence, which should particularly

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Custom interactive analysis on all Seven Bridges environments

Jessica Lau

Cancer Genomics Cloud, Cavatica, Platform, Product News

This week we released Data Cruncher, an interactive analysis tool available on the Seven Bridges Platform, Cancer Genomics Cloud, and Cavatica. By enabling researchers to apply custom scripts in JupyterLab to data stored in the cloud, Data Cruncher supports interactive and collaborative bioinformatic analysis at scale. Bringing custom interactive analysis to the cloud Although some

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Simons Genome Diversity Project now available on the Platform and CGC

Patrick

Cancer Genomics Cloud, Genomics, Platform, Seven Bridges News, Useful Data

We’ve just announced the availability of the Simons Genome Diversity Project (SGDP) dataset on our Platform and Cancer Genomics Cloud. In keeping with Seven Bridges’ mission to colocalize data and analysis tools on the cloud, anyone with an internet connection can now explore SGDP’s 35TB of data. One way to

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Creating a bulletproof workflow

Marko Marinkovic

Platform

We’ve interviewed some of Seven Bridges’ experienced bioinformaticians to collect their tips and best practices for creating a bulletproof workflow on the Platform. Many bioinformaticians will have experienced the frustration of inexplicably failed analyses, incorrect outputs, or inconsistent results. When dealing with complex tools and gigabytes or even terabytes of

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Making efficient use of your compute resources

Andrea Szollossi

Platform

The non-trivial matter of optimising compute resources available for your analysis is brought into the spotlight. We discuss when you might benefit from optimising the compute resources available for your analysis as well as how you can achieve this on the Seven Bridges Platform. Examples of effective management of large

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What happens when I run a task?

Aleksandar Gazibara

Platform

Each time you run a tool or a workflow on the Seven Bridges Platform, you create a task. The task goes through several different phases before it is finally completed. A change in its status, displayed in the upper left corner of the task page, marks off each phase, as

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Customizing your tasks on the Seven Bridges Platform

Marko Marinkovic

Platform

This blog post provides an overview of how hints can be used to customize tasks on the Seven Bridges Platform. In the context of the Platform, “hints” are parameters that allow you to configure or override some of the predefined ways in which apps and tasks work. Specifically, hints can be

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The Data Browser has a new look!

Kate Hodesdon

Cancer Genomics Cloud, Platform

Representing more than 11,000 patients, each analyzed across multiple molecular dimensions, The Cancer Genome Atlas (TCGA) represents an incredibly rich data resource. However, navigating this landscape to find exactly the data that is most interesting can be challenging – particularly when information is spread across multiple sources. To address this

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The new normal: portable workflows

Kate Hodesdon

Platform

Since 2014, researchers around the world, including engineers and scientists at Seven Bridges, have been developing the Common Workflow Language (CWL) specification. The ambitious goal of this project is to enable portable, reproducible and scalable biomedical data analysis. In other words – enabling the same workflow (including the precise tool

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We are always engaged in research and development, working to build the future of genomics, science, and health. Let's work together. We'd love to hear about your projects and challenges, so drop us a line.

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