Lists

A list of features can be used to filter data or perform some analysis e.g. pathway enrichment analysis, or perform visualization like heatmap etc.

• Click on gear button on Analysis page the top right corner

• Choose Settings in the menu

• Select Lists from the left panel of the Components section.

To create new list, select the + New list button on the top of the page and give the list a name. Choose between the three list options:

• Local file: text file (.txt) on the local computer

• Text: manually specify a list of names

• Hosted lists: lists hosted by Illumina

When manually specifying a local file or text, only the user who added the list can view and use the lists.

The list name needs to be unique for each user. A description is optional. The list of features can be specified from a .txt file on your local computer by selecting the Local file option. The .txt file should contain only one feature per row.

To manually enter a list of genes, select the Text option. Content can be typed into the text field or pasted from the clipboard as one feature per row.

Select Add list to add the list. The new list will be added to the list table.

When the Hosted lists option is chosen, lists can be downloaded by clicking the check box for each list on the left to select lists and click Add list.

View and sort the name of the list, number of features, owner, and creation date by clicking the column title of the list table. Click on the 3 dots under Actions column to download or edit the list:

Use a Feature list to Select & Filter populations

Feature lists can be used to Select & Filter.

• In the Data Viewer, select the Style configuration option

• Choose Feature list from Color by drop-down list

• Select the List of interest using the drop-down

• Choose a Metric for the feature list

• Click Select & Filter under Tools on left

• Use the Add criteria drop-down to choose Gene score

• Use the slider or text fields to select a population

• Use Filter at the top right to include () or exclude () this population

• Apply observation filter can then be used to filter this population to a specific node in the analysis pipeline

To remove this filter, click Clear filters.