# Can secondary analysis run on MiSeq while a run is in progress?

It is **not possible** to perform secondary analysis on the MiSeq when a sequencing run is in progress.

If a new sequencing run is started on the MiSeq before the secondary analysis of a previous run is complete, the secondary analysis is stopped automatically.

MiSeq computing resources are dedicated to either sequencing or analysis, and the system is designed in such a way that a sequencing command overrides an analysis command.

Secondary analysis can later be requeued from the MiSeq Reporter or Local Run Manager Analyses tab, when sequencing is not in progress.

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| *For any feedback or questions regarding this article (Illumina Knowledge Article #2604), contact Illumina Technical Support* [*techsupport@illumina.com*](mailto:techsupport@illumina.com?subject=Question%2FFeedback%20Regarding%20Illumina%20Knowledge%20Article%20#000002604%20-%20Instrumentation%20\&body=Dear%20Illumina%20Technical%20Support,%0D%0A%0D%0A)*.* |


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