Please Note: We recommend users initiate the update during a period of instrument downtime. During the update process, the system may restart multiple times and will request a power cycle when the update is complete.
For systems with slower network connections and upgrading from AOS 2.x, the AOS 3.4.0 upgrade may take between 1-2 hours to complete. If the upgrade process does not complete within 3 hours, please contact ElemBio Support at support@elembio.com.
Summary of Changes
AVITI OS v3.4.0
Applies to all instruments (AVITI™ LT, AVITI, and AVITI24™)
- Third-Party Workflow Integration:
- Added support for distinguishing between third party and Elevate workflows within the Trinity™ user interface. Please note: Trinity products supporting third party workflows will be made available in a future release.
- Added support for distinguishing between third party and Elevate workflows within the Trinity™ user interface. Please note: Trinity products supporting third party workflows will be made available in a future release.
- Polony Map Generation (PMG) Shift Enhancements:
- Added PMG shift support for Trinity third party runs.
- New PMG shift warning alerts users when no indexing is used, indicating that no data will be generated for skipped cycles.
- Metric Display Fixes:
- Resolved an issue where the Percent Passing Filter metric was displayed prematurely, prior to final calculation completion.
- Fixed a bug where “NaN%” was shown for the Q30 percentage of Library Pool 2 during dual-library runs. The metric will now correctly display a placeholder (e.g., “–”) until actual values are available.
- Resolved issue where the Reads metric was duplicated across library pools in Individually Addressable Lane runs.
Applies to AVITI and AVITI24
- Custom Recipe Support: Enabled compatibility with the Custom Recipes advanced run setting for Cloudbreak UltraQ™ workflows.
Enhancements available today
- Increased Sequencing Output:
- Users can expect up to a 50% increase in reads passing filter when loading at higher concentrations with Cloudbreak™ and Cloudbreak Freestyle™ 2x150 and 2x75 kits. For more information on sequencing kit specifications on AVITI24, please see our website.
- Users can also expect increased output with Trinity Sequencing kits with no change to loading concentration, allowing for up to 36 exomes per flow cell.
- Advanced Setting – High-Density Polony Mode (Expert Mode HD):
- HD Mode is now available exclusively for 2x300 kits. For 2x150, 2x75, and Trinity kits, current computational advancements implemented in AOS v3.4.0 deliver maximum achievable read output at this time.
- Maintenance Wash Lockout Policy Update:
- For AVITI24 instruments not running CytoProfiling workflows, the wash lockout period is extended to 30 days. Users must continue performing weekly maintenance washes, as per best practices.
- If a maintenance wash is not completed within 30 days, the system will prevent new runs until a wash is performed.
- Note: Once a CytoProfiling run is initiated on either side of the instrument, the wash lockout will automatically revert to 7 days.
- Image Processing Fix: Resolved an issue where z-slices of Cell Paint tiles were intermittently missing during CytoProfiling runs, leading to faint projected images.
CytoProfiling Enhancements (for products coming soon)
Please note: products associated with the following software enhancements will be available at a later date.
- Teton Focus Panels: Introduces pre-configured panels for custom protein batches in Teton runs. Available panels include:
- Cytokine Signaling
- T-Cell Activation
- Innate Immunity
- Cell Metabolism
- Cell Stress & Apoptosis
- Gene Regulation
- Neurodegeneration
- Neurodevelopment
- Neuroinflammation
- Teton Antibody Screening Kit: Enables antibody screening for custom protein batches. Supports the following configurations:
- Cell Paint alone
- Cell Paint + Control antibodies
- Cell Paint + Control antibodies + Custom Antibodies
- 48-Well Consumable Support: New consumable format compatible with all Teton Runs, Focus Panels, Teton Atlas, and antibody screening workflows.
- ElemBio™ Cloud Integration: Planned runs now support 48-well consumables. All cytoprofiling workflows support custom recipes.
- Teton Atlas Low Output Kit Support: Adds compatibility with the Teton Atlas Direct In-Sample Sequencing Low Output Kit, including onboard cell assignment using guide sequences.
Known Issues, v3.4.0:
- If the upgrade from AOS v3.2.0 to v3.4.0 takes longer than 2 hours, users should contact support@elembio.com.
- Simultaneous leak errors on both sides of the instrument prevent AVITI OS from unlocking the waste module door.
- Runs can proceed even if polony map generation fails under specific undetected conditions.