How to stop a MiSeq run
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A run can be stopped during sequencing before the run has been completed using the Stop button on the Sequencing screen.
A user may want to stop a run if the run was set up incorrectly, if the data quality is bad, or if there is a hardware error.
When a run is stopped, the current command is not completed and the flow cell stage moves to the forward position.
Real-time Analysis software continues analysis for the last completed cycle.
Stopping a run is final. A stopped run cannot be resumed.
The only option is to proceed to an instrument wash.
For any feedback or questions regarding this article (Illumina Knowledge Article #5081), contact Illumina Technical Support .