Follow these steps to get started with xyna.bio:

1. Visit https://saturn.xyna.com
2. Click on “Create an Account”.
3. Provide your user information and accept the terms and conditions.
4. You will be redirected to the login form, where you can log in with your new credentials.
5. Now you can directly start building your pipelines.

System Features

Creating and running pipelines

You can create a node with a right-click on the canvas. Use the search bar to find a specific node or browse through the node categories. You can connect matching in- and outputs of nodes to create pipelines. Just click on the output of interest and drag the line to the desired input. To run the pipeline, execute the last node via ⁝ or Ctrl+E.

You can navigate across the canvas with click-and-drag and you can zoom by scrolling.

Managing pipelines

You can save a pipeline under a new name for this session by right-clicking and selecting Save As… or with the shortcut Shift+Alt+S. Keep in mind that the pipeline is deleted when reloading the session.

Alternatively, you can export the pipeline with the shortcut Shift+E. You can copy the displayed json code and store it in a local file on your device. With import, or Shift+I, you can paste the code back and re-load the pipeline anytime.

Managing files

Use the Files tab to manage your files. There, you have to upload all necessary input files before running a pipeline. All files created by the pipeline are stored there, too, each with a unique ID. You can access and download them freely.

Managing jobs

You can find an overview of all jobs on the Jobs tab. Via ⁝, you can open the pipeline or view the spreadsheet of the job.

Displaying jobs and data

Under More… → Spreadsheet, you can display jobs and files in spreadsheet format.

Displaying sequences

Under More… → SeqViz, you can display and interactively explore biological sequences. SeqViz can display the sequences linearly and circularly and provides multiple additional features.

Displaying structures

Under More… → MolStar you can display and interactively explore 3D protein structures. MolStar provides features for displaying biomolecules and is integrated in multiple popular databases, including the RCSB PDB.

Citations:

David Sehnal, Sebastian Bittrich, Mandar Deshpande, Radka Svobodová, Karel Berka, Václav Bazgier, Sameer Velankar, Stephen K Burley, Jaroslav Koča, Alexander S Rose: Mol* Viewer: modern web app for 3D visualization and analysis of large biomolecular structures, Nucleic Acids Research, 2021; https://doi.org/10.1093/nar/gkab314.