Rehybridization Workflow
A rehybridization run might be necessary if metrics generated during the first few cycles show intensities below 2500. Some low-diversity libraries can show intensities below 1000, which is expected and cannot be resolved with rehybridization.
The End Run command is final. The run cannot be resumed, run consumables cannot be reused, and sequencing data from the run are not saved.
When you end a run, the software performs the following steps before the run ends:
| • | Places the flow cell in a safe state. |
| • | Unlocks the flow cell RFID for a later run. |
| • | Assigns a rehybridization expiration date to the flow cell. |
| • | Writes the run logs for completed cycles. A delay is normal. |
| • | Bypasses the automatic post-run wash. |
When you start a rehybridization run, the software performs the following steps to perform the run:
| • | Creates a run folder based on a unique run name. |
| • | Checks that the flow cell rehybridization date has not expired. |
| • | Primes reagents. A delay is normal. |
| • | Skips the clustering step. |
| • | Removes the previous Read 1 primer. |
| • | Hybridizes a fresh Read 1 primer. |
| • | Continues through Read 1 and the remainder of the run based on specified run parameters. |
