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  • Nextflow: Reproducible Containerised Scientific Workflows across Clusters and Cloud

    Nextflow: Reproducible Containerised Scientific Workflows across Clusters and Cloud

    Dates 25-26 September 2023 To foster international participation, this course will be held online


    Nextflow is a widely adopted workflow system for running high-throughput, data-intensive applications across cloud and on-premise infrastructure.

    It has fast become one of the primary technology platforms for computational workloads in life sciences.

    The framework allows scientists to write code in any scripting language, define software dependencies with containers, connect tasks with the event-driven dataflow programming DSL and then deploy anywhere: local machines, grid computing systems or public cloud infrastructure.

    Nextflow developers Paolo Di Tommaso and Evan Floden will present this popular two days training event.

    The workshop is intended for users to become quickly proficient in Nextflow technology, starting from basic through to advanced concepts.

    Intensive training is provided across 14 Nextflow topics with each topic designed to last between 45 to 60 min and includes talks, live demonstrations and practical sections which all participants can complete.

    Day One

    Overview of Nextflow workflow system
    Nextflow language syntax and data structures
    Dataflow variables and channel semantics
    Nextflow operators and processes
    Simple pipeline implementation
    Modules and DSL2
    Pipeline sharing & best practice for reproducibility

    Day Two:

    Nextflow configuration and profiles
    Managing dependencies with containers
    Executors & deployment scenarios
    Error recovery & strategies for error handling
    Workflow and runtime metadata and events
    Common implementation patterns
    Implementation of a variant calling pipeline

    A repository will be provided with all the necessary material and software as well as an AWS cloud environment to carry out the activities in the relevant practical sessions.

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