Merge pull request #7 from ncihtan/cds-access

Add 'Accessing Images via Cancer Data Service (CDS)' Page
ncihtan · Sep 26, 2023 · 1ae6ea7 · 1ae6ea7
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 # Google BigQuery

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+# Accessing Images via Cancer Data Service (CDS)
+
+HTAN Imaging Level 2 data is now available through the [NCI Cancer Data Service (CDS)](https://datacommons.cancer.gov/repository/cancer-data-service).
+
+Data access via Seven Bridges Cancer Genomics Cloud (SB-CGC) requires a CGC account [[register here](https://docs.cancergenomicscloud.org/docs/sign-up-for-the-cgc)]. For further information on using SB-CGC resources including programmatic access options, you can explore their [online documentation](https://docs.cancergenomicscloud.org/docs).
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+
+## Filtering for HTAN Images in the CDS File Repository
+
+From the [SB-CGC dashboard](https://cgc.sbgenomics.com/home/), click **Cancer Data Service Explorer** under the **Data** tab. 
+
+![CDS: Accessing the CDS file explorer](../img/cds_img1.png)
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+Select **Explore files**
+
+![CDS: Accessing the CDS file explorer](../img/cds_img2.png)
+
+From the sidebar, filter by **Dataset**: HTAN and **Experimental Strategy**: ImagingLevel2
+
+![CDS: Filter by HTAN study](../img/cds_img3.png) ![CDS: Filter for imaging data](../img/cds_img4.png)
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+This provides a listing of all HTAN Imaging Level 2 data that is currently available through CDS. 
+
+![CDS: HTAN Imaging Data on CDS](../img/cds_img5.png)
+
+
+## Download Images from CDS
+
+Additional filters are available for further selection including Data format, Site, etc., as well as text search fields to search files by Filename, case ID (HTAN Participant ID), and sample ID (HTAN Biospecimen ID).
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+Once you have filtered to your files of interest, click **Copy to project** to add the selected files to the SB-CGC project of your choosing (create a new project if you do not have one set up). 
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+![CDS: Add selected files to project](../img/cds_img6.png)
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+You will be automatically re-directed to the **Files** tab of your SB-CGC project. From here, check the boxes of the files you would like to save. Clicking **Download** will download the selected images to your local machine.
+
+![CDS: Download selected imaging files](../img/cds_img7.png)