该工作由美国数据分析公司DNAnexus负责,并帮助开发了UKB研究分析平台,该平台由亚马逊网络服务公司(AWS)提供基于云的计算基础设施和数据存储。 UKB首席研究员Rory Collins表示:“之所以将云平台与WGS项目联系起来,是因为数据的规模。我们正在进行大规模测序,将其移交给研究人员是不可行的。UKB的WGS数据只能通过云平台提供给...
Additional information on the applet can be found in its corresponding folder within thednanexus-appletsfolder. How to build and run an existing applet Login to DNx via the command line usingdx login Select the project you wish to build the applet in usingdx select ...
Scripts and workflows for use analyzing UK Biobank data from the DNANexus Research Analysis Platform - pjgreer/ukb-rap-tools
spark-example-applet:This applet takes as an input a field id (in DNAnexus format, e.g. participant.p31) and outputs the mean for that field. It is intended as a test/example of a applet enabled to access the Spark dataset within the project the applet is built in. ...
"Further information can be found in Research Analysis Platform documentation: https://dnanexus.gitbook.io/uk-biobank-rap/working-on-the-research-analysis-platform/using-spark-to-analyze-tabular-data\n" ] }, { "cell_type": "markdown", "metadata": {}, "source": [ "## Import `dxdata...
(https://dnanexus.gitbook.io/uk-biobank-rap/working-on-the-research-analysis-platform/using-rstudio-on-the-research-analysis-platform#backing-up-workspace-to-the-project) and restore it using [`dx-restore-folder`](https://dnanexus.gitbook.io/uk-biobank-rap/working-on-the-research-analy...
Further information can be found in Research Analysis Platform documentation: https://dnanexus.gitbook.io/uk-biobank-rap/working-on-the-research-analysis-platform/using-spark-to-analyze-tabular-data Notebook file: JupyterNotebook_Python/A103_Export-participant-data_Python.ipynb Dependency A Spark ...
Further information can be found in Research Analysis Platform documentation: https://dnanexus.gitbook.io/uk-biobank-rap/working-on-the-research-analysis-platform/using-spark-to-analyze-tabular-data Notebook file: A103_Export-participant-data_Python.ipynb Dependency A Spark instance Run info: run...
A JupyterLab session will open. On the left side of the screen, you will see a a "DNA Nexus" tab, allowing you to open notebooks directly from your project environment. If you have saved this notebook under you project environment, just double click to open it. ...
Login to the RAP:https://ukbiobank.dnanexus.com/panx/projects Click on the Tools menu and select "JupyterLab" Click on the "New JupyterLab" button to start a JupyterLab instance. Select a name and a project from the dropdown menu for your JupyterLab environment. ...