Tag Archives: nextflow

nvidia parabricks

NVIDIA Parabricks version 4.0 free for R&D

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NVIDIA’s Clara Parabricks v4.0, presented during Nvidia’s GTC 2022, introduces a couple of groundbreaking updates that democratize access to accelerated genome sequencing analysis. The v4.0 release features expanded compatibility with workflow languages like WDL and NextFlow, enabling seamless integration with GPU-accelerated and third-party tools. Additionally, it supports the Cromwell workflow management system, making it easy […]

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Next in Nextflow: DSL2

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During the ISBM 2020 online conference (iscb.org), the creator of Nextflow, Paolo Di Tommaso, introduced the next iteration of Nextflow: DSL2. To quickly recap Nextflow, it’s a framework languange that simplifies the creation of scalable workflows for researchers and developers, using a Groovy-based scripting. It manages tasks across diverse computing environments, ensuring reproducibility and scalability. […]

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Bioinformatics Frameworks Part 5: Cromwell and WDL

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Recently I visited the DTL Programmers Meeting, where I had a discussion with members of the SASC bioinformatics development group. For them, bioinformatics pipelines are more about scalibilty and manageablity, not about user-friendliness or readability. They opted for Cromwell, a framework language maintained by the Broad Institute.

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BioCentric Github Repository

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BioCentric is all about creating the bridge between high level computational capabilities and real biological research.
To make this possible and provide solutions to reseachers at large, we started a Github repository.

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Bioinformatics Frameworks Part 4: Nextflow

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One of the biggest changes within the field of bioinformatics is the rise of the framework.  In part four, I will focus on Nextflow, the framework build for scaling.

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