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 3.3.1 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 v3.3.1
For all instruments
- Resolved a known issue where the Percent Passing Filter metric could be displayed prematurely, before the final calculation was complete.
- Resolved a known issue where "NaN%" was shown for the Q30 percentage of Library Pool 2 in dual library runs, instead of displaying a placeholder
(e.g., "-") prior to the actual value populating.
For AVITI24™ instruments
- Resolved a known issue where in some cases, z-slices of Cell Paint tiles may be missing, causing the projected image for that tile to appear fainter.
Known Issues, v3.3.1:
- If an upgrade from AOS3.2.0 to AOS3.3.1 does not complete within two hours, users should reach out to support@elembio.com for additional support
- If leak errors are triggered for both sides of the instrument, AVITI OS cannot unlock the waste module door.
- If the AFIC board loses power, it will not restart automatically and requires a power cycle. In the event of a power interruption or loss, power cycle the instrument via the UI after power is restored.
- The run can continue even if polony map generation fails, as AVITI OS cannot detect a particular failure scenario.
- The RunParameters.json Recipe Values field does not include the cartridge part number and small cell value.
- Reagent and buffer part numbers are obscured on the Run Summary screen when a run includes a Custom Add-on Protein Panel.
AVITI OS v3.3.0
For all instruments:
- Performance improvements to the system have reduced the priming times required before each sequencing run. For instruments below high-altitude, priming time is reduced to less than 5 minutes. For high-altitude instruments, priming time is reduced to less than 8 minutes. Users should be aware of this reduced priming time and stay near the instrument to initiate the run.
- Over-the-air update improvements. Update procedure requires user to power cycle the instrument prior to upgrade, if a power cycle has not been performed in the prior week.
- Air Filter Replacement Reminder: For high-elevation sites, a reminder is sent every 6 months. For other sites, it is sent once a year. Users can replace the filter and reset the timer through AVITIOS.
- When an ElemBio Catalyst™ subscription expires
- Users will no longer be able to select the Catalyst storage connection during run setup.
- The storage connection will be marked as expired in the system.
For AVITI and AVITI LT instruments:
- AVITI and AVITI LT instruments now require a maintenance wash once every 30 days to maintain performance of the instrument. A reminder will be displayed to instrument users 60 hours prior to the maintenance wash deadline, to allow planning ahead.
For AVITI24™ instruments:
- Support for New Fixed Teton™ Immuno-Oncology and Neuroscience Panels
- New fixed Neuro and Immuno panels are now available in run setup.
- Includes new cell segmentation models for suspension and neuronal cell types.
- A small cell flag allows users to adjust amplification time for optimal signal detection.
- Support for New Teton Cartridge SKU
- Users can now select the cartridge directly from the run setup screen.
- The instrument UI has been updated to display the cartridge name throughout the workflow.
- The prepare reagents screen now reminds users to load RNA and protein probe tubes into the cartridge.
- The load reagents screen checks the cartridge part number against the selected cartridge.
- Support for Teton Custom Protein Add-On Panel
- Users may load a Teton Custom Add-On Protein Panel from USB or a published cloud design.
- The run setup screen now displays target names and validates panel content, ensuring:
- The panel is a B08 barcoding batch with 5-88 barcoding targets.
- The panel contains a valid panel name, ID, and probe concentrations.
- The instrument UI now displays the custom panel name in the run summary.
- When using an add-on custom panel, the prepare reagents screen prompts users to verify panel loading.
- OBPA execution now uses a merged panel that includes both the selected fixed panel and the additional batch.
- Telemetry Enhancements to Aid in Remote Troubleshooting
- New Metrics Collected
- Nucleated rate – Percentage of cells with a nucleus.
- Cellular assigned rate – (Polonies assigned to a barcode and inside a cell) / (Total polonies inside a cell).
- Cellular polony dropout rate – Percentage of cells with no polonies in a batch for each well.
- NuclearArea (nuclear area in pixels)
- AreaUm (cellular area in microns)
- NuclearAreaUm (nuclear area in microns)
- XuM (X position in microns)
- YuM (Y position in microns)
- ZuM (Z position in microns relative to the Z00 slice)
- Z (String label of the Z-slice, e.g. 00 or 01)
- These metrics are stored across run output files such as the RunStats.json, RawCellStats.csv, RawCellsStats.parquet, and {tile}_barcodes.parquet
Known Issues, v3.3.0:
- If an upgrade from AOS3.2.0 to AOS3.3.0 does not complete within two hours, users should reach out to support@elembio.com for additional support
- Percent Passing Filter metric may be displayed before final calculation is complete.
- If leak errors are triggered for both sides of the instrument, AVITI OS cannot unlock the waste module door.
- If the AFIC board loses power, it will not restart automatically and requires a power cycle. In the event of a power interruption or loss, power cycle the instrument via the UI after power is restored.
- The run can continue even if polony map generation fails, as AVITI OS cannot detect a particular failure scenario
- “NaN%” is displayed instead of “–” for the Q30 percentage of Library Pool 2 in dual library runs before it populates with the Q30 percentage.
- The RunParameters.json Recipe Values field does not include the cartridge part number and small cell value.
- Reagent and buffer part numbers are obscured on the Run Summary screen when a run includes a Custom Add-on Protein Panel.
- In some cases, z-slices of Cell Paint tiles may be missing, causing the projected image for that tile to appear fainter.