User Help Pages
  • Welcome to the Help Pages for UCSC Xena
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    • Basic Tutorial: Section 1
    • Basic Tutorial: Section 2
    • Basic Tutorial: Section 3
    • Advanced Tutorial: Section 1
    • Advanced Tutorial: Section 2
    • Tutorial: Tumor vs Normal
    • Tutorial: Viewing your own data
    • Live examples
  • How do I ...
    • How do I make a KM plot?
    • How do I compare tumor vs normal expression?
    • How do I remove null data (gray lines) from view?
    • How do I make subgroups?
    • How do I make more than 2 subgroups?
    • How do I make subgroups with geneA high and geneB high?
    • How do I compare gene expression between subgroups?
    • How do I compare gene expression between different cancer types?
    • How do I remove duplicate samples from a KM plot?
    • How do I view multiple types of cancer together?
    • How do I filter to just one cancer type
    • How do I view my data with the data from TCGA?
    • How do I change the color of a column?
    • How do I interact with the tooltip?
    • How do I cite UCSC Xena?
  • Overview of features
    • Visual Spreadsheet
      • Coloring for Mutation Columns
      • Coloring for Segmented Copy Number Columns
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      • Supported search terms for finding samples
    • Differential Gene Expression
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    • Accessing data through python
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  • FAQ
    • Xena Browser
    • Data and datasets
  • Viewing your own data
    • Getting Started
    • Probes/transcripts/identifiers we recognize
    • Data format specifications and supported biological data types
    • KM plots using data from a Local Xena Hub
    • Hubs for institutions, collaborations, labs, and larger projects
    • Loading data from the command line
    • FAQ/Troubleshooting Guide
  • Technical documentation
    • Setting up Xena for your institution
    • Deep Linking Into Xena
    • Metadata Specification
  • Contact us
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  • The four ways to download data
  • How do I open the download files?

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  1. Overview of features

Download Data

There are 4 ways to download data

Last updated 3 years ago

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The four ways to download data

1. Download data in a single column of a Visual Spreadsheet In a Visual Spreadsheet, click on the column Hamburger menu, then "Download" to download just the data from the column.

2. Download data in an entire Visual Spreadsheet In a Visual Spreadsheet, clicking on the download icon in the upper right corner of the spreadsheet.

3. Bulk download a whole dataset file Click top banner "Data Sets" to navigate to the dataset of your interest, where a download url link is in the page. You can also reach the dataset page by clicking on the column Hamburger menu, then "About". Click on the download url to download the entire dataset. Or use "wget", "curl" to download from command line.

4. Via our APIs:

How do I open the download files?

Our files are tab-delimited or '.tsv'. We recommend opening them in your favorite spreadsheet program, such as Microsoft Excel, which will automatically convert the tabs into new columns. Please note that if you have many thousands of samples, Microsoft Excel will likely have difficulty opening the file. In this case, the command line may work better for you.

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