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Molly D Data Analyst The helpers that keep the community running smoothly. UKB Community team

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Articles

Recent activity by Molly D

  • Introduction to Command Line Interface (CLI)

    This video is a good resource for UK Biobank researchers using the UKB-RAP.    Key chapters:  0:00 Ways to Interact with UKB-RAP 0:44 CLI, API - Why Do We Need Them? 2:43 How Does CLI Interact w...

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    • 1 follower
    • 0 comments
    • 0 votes

  • How much will it cost me to use the UKB-RAP?

    Due to funding provided by Wellcome, access to the UKB-RAP is currently free, however there are fees (payable to the platform provider, DNAnexus) for storage of uploaded or derived data, compute, a...

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    • 2 followers
    • 0 comments
    • -4 votes

  • Logging into the UKB-RAP

    You will be unable to login to UK Biobank's Research Analysis Platform (UKB-RAP) or the UK Biobank Community if your Access Management System (AMS) profile does not include your date of birth. You ...

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    • 2 followers
    • 0 comments
    • -2 votes

  • Introduction to Workflow Description Language (WDL)

    This is a helpful resource for UK Biobank researchers using the UKB-RAP.  Key Chapters: 00:00 Introduction 05:11 General Workflows on RAP 08:10 Defining WDL & WDL Workflows 15:10 Running WDL Wo...

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    • 1 follower
    • 0 comments
    • -1 votes

  • What data can I access on the UKB-RAP?

    You can access all of the data that you could previously get from the Data Showcase, apart from items in the Returns Catalogue, and some restricted fields, which are not available in the UKB-RAP.

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    • 2 followers
    • 0 comments
    • -2 votes

  • Will I need to pay for storage of multiple copies of the data?

    The master copy of data is held by UK Biobank at our cost. You only pay for storage of data that you derive or upload into the platform. Projects can be shared between multiple researchers on the s...

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    • 2 followers
    • 0 comments
    • -1 votes

  • How to use RStudio workbench

    This is a good resource for UK Biobank researchers using the UKB-RAP.    Key Chapters: 00:00 Starting RStudio Workbench on RAP 01:41 Starting a Session in RStudio Workbench 01:58 Getting Files i...

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    • 4 followers
    • 0 comments
    • 1 vote

  • What tools are available on the UKB-RAP?

    You can use Jupyter Lab, RStudio and the command line to run analyses on the UKB-RAP. It includes pre-loaded bioinformatics tools, along with Python and R packages. You can also use Stata with Jupy...

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    • 4 followers
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    • 0 votes

  • How to access and use dispensed data

    When you first create a new project, you won’t see the data right away. Dispensing data to your new project will take some time. Depending on the type of data being dispensed, this process can take...

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    • 1 follower
    • 0 comments
    • -5 votes

  • Connect your UK Biobank AMS account to the UKB-RAP

    Ensure that you are listed as a Principal Investigator (PI) or collaborator on a UK Biobank-approved access application. If you already have a DNAnexus account, log into the UK Biobank Research Ana...

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    • 2 followers
    • 0 comments
    • -18 votes