Allie Cliffe
Articles
Recent activity by Allie Cliffe
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AnVIL on GCP: Data Submitters' guide
An overview of the data submission process to help AnVIL Data Submitters (GCP) get started staging and uploading data to TDR. PrerequisitesThis document assumes you have already registered your st...
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Genomic screening with ClinVar (Azure tutorial)
1. Clone the template workspace 1.1. Click on the three-dot menu at the top-right of the workspace and select Clone. 1.2. Fill in a Workspace name. In this example, I’ve added my initials and the ...
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Polygenic Risk Score (Azure tutorial)
1. Clone the template featured workspace 1.1. Go to the PRS calculation Featured Workspace. Click on the three-dot menu at the top-right of the workspace and select Clone. 1.2. Fill in a Workspace...
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How to stage data in your AnVIL deposit workspace
Once you have prepared your omics object files and generated TSV files for each table in your data model, follow the directions below to deposit the data object files and all TSV files into AnVIL-o...
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Prepare data for submission to AnVIL
In this step, you'll prepare for data ingestion by organizing all required data and metadata in your data model (see Step 2: Set up a data model) in a format compatible with AnVIL. Submission data ...
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AnVIL on Azure: Data Submitters' guide
An overview to help (AnVIL) Data Submitters previously using TDR (GCP) get started staging and uploading data to TDR (Azure). For step-by-step instructions, to stage data in your deposit workspace,...
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AnVIL User Guide for REDCap
Learn how to export data from your REDCap project into an AnVIL workspace. This resource provides step-by-step instructions on manual data export from REDCap into Terra, and programmatic export usi...
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How to update GA4GH DRS URIs
As of September 2023, DRS URIs have a different format. If you have tables of data with DRS URIs from before the switchover, you will need to update the formatting in order to access the data. Step...
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Documentation best practices (dashboards and notebooks)
Learn how to make your work on Terra understandable and reproducible - for yourself, your team, and others - with clear and complete documentation. Read on for best practice guidelines to help impr...
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Best practices for using service accounts in Terra
Service accounts allow Terra to access resources on your behalf, such as when ingesting data into the Terra Data Repository, using API calls, or automating some aspects of bulk (workflow) analysis....
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