Create and analyze variant sets

When either a single-sample or multi-sample Variants view is active, you can save a selected group of variants as a “set.” This set appears in its own multi-sample Variants view. You can also directly compare two or more variants sets.

Create a subset of variants:

Task	How To
Create a set of variants using a new filter	This can be done in either of two ways: From within an existing multi-sample or single-sample Variants view, use Ctrl/Cmd+click or Shift+click to select rows in the table that you wish to put in the set. (You may first wish to click a column header to facilitate grouping variants of interest.) Then choose Variants > Create Set of Variants > With Filter. From the Experiments panel, select experiments you wish to include in the set. Selecting no experiments is the same as selecting all experiments. Right-click on the panel and choose Create Set of Variants. In both cases, the Create Variant Set wizard opens at the Experiment screen. If you selected a subset of available experiments, these will be checked in the experiment list. See Filter a multi-sample Variants view to learn more about filtering options. After pressing Apply or OK in the wizard, the Variants view for the specified set becomes the active view.
Create a set of variants using the current filter settings	From within an existing multi-sample or single-sample Variants view, choose Variants > Create Set of ‘n’ Variant Locations or click the Create variant set tool (). Use Ctrl/Cmd+click or Shift+click to select rows in the table that you wish to put in the set. (You may first wish to click a column header to facilitate grouping variants of interest.) If no rows are currently selected, this command creates a set for all variant locations and is the same as using the menu command Variants > Create Set of Variants.

Work with an existing set of variants:

A variants set is immutable and cannot be added to, subtracted from, or filtered. However, in other ways it acts like any other multi-sample Variants view.