Currently, we don't have a date set for the discontinuation of version 2.0. We will provide email notification and place a message on your workspace homepage prior to such a change.

To visually demonstrate overlap between two samples, use the Pair-wise Scatter Plot analysis. Different types of scatter plots may be selected via the Edit link, and there is also an option to display the Pearson coefficient between the two samples.

To demonstrate overlap between multiple pairs of samples at once, use the Sample Overlap Tool. The Sample Overlap Tool measures the extent to which rearrangements are shared between samples. This tool supports several estimation techniques including TCR Overlap, Pearson's Correlation (r2), Jaccard Index, and Morisita Index. The tool will compute the specified overlap measure between all selected samples and generate a TSV file for the raw overlap data, and a PDF illustrating a heatmap of the overlap data. Finally, for all selected samples a scatterplot matrix will be generated.

Using filters is an easy way to search for a specific sequence in your own data. To do this, initiate a new analysis, then click on "Filters" in the upper right of your screen. Click the Add New Filter drop down menu and scroll down. To match a nucleotide sequence, click on "Rearrangement," and to match an Amino Acid sequence click "Amino Acid". Enter the sequence of interest in the value field. Use dropdown menus above the value field to adjust the search logic. Click the "ADD FILTER" button. The matching sequence(s) can be viewed most clearly in the Rearrangement Details View.

To search for a specific sequence within publicly available samples, first navigate to immuneACCESS™ using the main menu in the upper left corner of the page. Entering the amino acid or nucleotide sequence of interest in the immuneACCESS search bar will return any exact matches in the entire database. These samples can then be added to your workspace for analysis.

Start by creating a new project, then add the samples you wish to move. Navigate to your project dashboard and locate the new project. Click “Edit” and then click the Move tab. Fill in the email address for the person you’d like to move the project to.

Use projects to organize your samples and analyses. For example, if you have 300 samples in your workspace, but only want to analyze ten specific samples from Subject 321, it's very cumbersome to repeatedly find and select these ten samples for each new analysis. It's also difficult to locate any past analyses that you've saved since they will be mixed in with the saved analyses of other samples.

A better approach is to create a new project using just the ten samples of interest from Subject 321. It's easy to navigate to a project, and any analyses you do on these samples can be saved within the project. If your colleague also wants to analyze the same sub-set of samples, you can each make your own projects with the same set of ten samples, but your work will be saved individually as part of your respective projects.

Click on the column headers in the Analyzer to reveal term definitions. In the Analysis views, look for the "About this view" link. Similarly, for tools, click on the "! Learn more about..." links for more information. Use the question mark at the upper right corner of the screen to access the Help page. Please refer to our Glossary for a full list of immunosequencing terminology.