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exclude | Additional Assistance |
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We can use a tab-delimited text file to add sample attributes. The text file should have samples on rows and attributes on columns with the first column containing the sample IDs.
- Select the Data tab
- Select Assign sample attributes from a file (Figure)
- Select the file Sample_attributes.txt from the same folder as the fastq files (Figure)
- Select Next
- Select the Import checkbox for Treatment (Figure)
- Select Import
The treatment attribute will be added as a column next to the sample name (Figure)
Attributes describe samples. Examples of sample attributes include treatment group, age, sex, and time point. Attributes can be added individually in the Metadata tab or in bulk using a text file. In this tutorial, we will add one attribute, 5-AZA Dose, manually.- Click the Metadata tab
- Click Manage under Sample attributes (Figure 1)
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SubtitleText | Adding sample attributes manually |
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AnchorName | Sample attribute addition |
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- Click Add new attribute (Figure 2)
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SubtitleText | Adding a new attribute |
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AnchorName | Selecting text attributes file |
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- To configure a new attribute, at Name, type in 5-AZA Dose as the name of the attribute
- Click Add to add 5-AZA Dose as a categorical, project-specific attribute (Figure 3)
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SubtitleText | Configuring a new attribute |
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AnchorName | Configuring attribute |
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- Name the first New category 0uM
- Click the green plus icon to add category (Figure 4)
- Repeat for two additional categories, 5uM and 10uM (Figure 5)
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SubtitleText | Creating attribute category |
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AnchorName | Creating attribute category |
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SubtitleText | All category attributes for 5-AZA Dose |
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AnchorName | All category attributes for 5-AZA Dose |
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- Click Back to metadata tab
The data table now includes an Attribute column for 5-AZA Dose (Figure 6). Next, we need to assign samples attribute categories for 5-AZA Dose.
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SubtitleText | Data table updated with column for 5-AZA Dose |
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AnchorName | Data table updated with column for 5-AZA Dose |
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The option to edit the 5-AZA Dose field for each sample will appear as a drop-down menu (Figure 7).
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SubtitleText | Dropdown menu to select treatment for each sample |
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AnchorName | Configured treatment groups |
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- Select the 5-AZA Dose text box for a sample to bring up a drop-down menu with the 5-AZA Dose attribute categories (0uM, 5uM, 10uM)
- Use the drop-down menus to add a treatment group for each sample
The first three samples (SRR592573-5) should be 0uM, the next three samples (SRR592576-8) should be 5uM, and the final three samples (SRR592579-81) should be 10uM (Figure 8).
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SubtitleText | Add 5-AZA dose to each sample as shown |
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AnchorName | Configured treatment groups |
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The data table will now show each a 5-AZA Dose attribute for each sample.
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