Browsing by Author "Blood, Phil"

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    The National Center for Genome Analysis Support
    (2017-05-15) Ganote, Carrie; Doak, Tom; Blood, Phil; Sanders, Sheri
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    NCGAS: Providing National Cyberinfrastructure to Biologists, esp. Genomicists.
    (2017-05-18) Doak, T.G; Blood, Phil; Ganote, Carrie; Sanders, Sheri
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    NCGAS: Providing National Cyberinfrastructure to Biologists, with a Focus on Genomics
    (2017-04-21) Doak, T.G.; Blood, Phil; Ganote, Carrie; Sanders, Sheri
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    Pushing the limits of job flexibility on HPC
    (Galaxy Community Conference 2017, 2017-06-30) Ganote, Carrie; Sanders, Sheri; Doak, Tom; Brokaw, Cicada; Papudeshi, Bhavya; Haas, Brian; Bankapur, Asma; Tickle, Tim; Blood, Phil
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    Third Generation Sequencing
    (2017-04-20) Sanders, Sheri; Doak, Tom; Ganote, Carrie; Blood, Phil
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    A voice for bioinformatics
    (PEARC 2017, 2017-07-11) Ganote, Carrie; Sanders, Sheri; Papudeshi, Bhavya; Blood, Phil; Doak, Tom
    One of the challenges to adoption of HPC is the disjunction between those who need it and those who know it. Biology (specifically, genomics) is a growing field for computational use, but the typical biologist does not have an established informatics background. The National Center for Genome Analysis Support (NCGAS) aids users in getting past the initial shock of the command line and guides them toward savvy cluster use. NCGAS is initiating a push to become domain champions alongside Oklahoma State’s Brian Cougar. Our position at IU gives us a close relationship with XSEDE and we already fulfill a role in pushing users toward XSEDE resources when our local clusters are ill-suited to the job. We currently act as liaison between biologists and Jetstream, IU and TACC’s research computing cloud. Typical issues include: Software installation; Software usage - what parameters do I choose, and how do I interpret the results; Batch job submission; Understanding how queues and job handlers work; Data movement, Spinning up VMs on Jetstream. We will discuss how we have structured our support, and illustrate our impact on XSEDE resources.
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    A voice for bioinformatics
    (PEARC 2017, 2017-07) Ganote, Carrie; Sanders, Sheri; Papudeshi, Bhavya; Blood, Phil; Doak, Tom
    One of the challenges to adoption of HPC is the disjunction between those who need it and those who know it. Biology (specifically, genomics) is a growing field for computational use, but the typical biologist does not have an established informatics background. The National Center for Genome Analysis Support (NCGAS) aids users in getting past the initial shock of the command line and guides them toward savvy cluster use. NCGAS is initiating a push to become domain champions alongside Oklahoma State's Brian Cougar. Our position at IU gives us a close relationship with XSEDE and we already fulfill a role in pushing users toward XSEDE resources when our local clusters are ill-suited to the job. We currently act as liaison between biologists and Jetstream, IU and TACC's research computing cloud. Typical issues include: Software installation; Software usage - what parameters do I choose, and how do I interpret the results; Batch job submission; Understanding how queues and job handlers work; Data movement, Spinning up VMs on Jetstream We will discuss how we have structured our support, and illustrate our impact on XSEDE resources.