How can I view and filter variants in Archer Analysis?
Variant reporting is even more powerful in Analysis 4.0. You can now apply specific variant filters, customize how and what information is displayed, and save filter sets for repeated use.
From the sample summary screen, click “Detailed summary” below the sample name. Then, click on “Variant Summary”. From here you can control your filter sets, add filters, hide or display columns, or export your data.
First, create a new filter set by clicking the dropdown and selecting “new”. We’ll call this one “somatic with targets”. After this filter set is saved, you can start adding some filters. For certain filters, such as this consequence filter, you can select multiple values by holding down the command key on a mac or the control key on windows while clicking. You can create as many filters as you want, and when you’re done, hit save.
Next, click “edit columns” to change the visibility and sorting of each column. You can also view information about that specific field, and when you’re done, simply click “save”.
Archer Analysis now makes it easier to view VEP and VCP annotations within variants. Simply hover over the Annotation icon, and Analysis displays the related annotations. You can even sort based on whether annotations are present or not, and set the default annotation for each variant call.
After you’ve organized your data the way you want, you can choose to export only your filtered data in TSV format or download the source file containing all of your variants in VCF or TSV format. This way, you can view your variants in the external application of your choice.
With Archer Analysis, it’s never been easier to organize variants and take control of your data. Learn more about Archer Analysis and test-drive it today at archerdx.com/analysis.
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