Plan a Sequencing Run

Use one of the following options to plan a sequencing run for the instrument. After setting up a run, the planned run displays on the Planned tab in the Runs screen. The planned run is available for selection when initiating a sequencing run.

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To plan your run in the cloud (with BaseSpace Sequence Hub), use the Run Planning tool in BaseSpace Sequence Hub to set up a sequencing run.

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Before planning a run, configure your cloud settings. Refer to Cloud Settings for more information.

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Runs planned in the cloud can be configured to complete secondary analysis on instrument. This feature requires that all necessary resource files for analysis are installed on the instrument.

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For more information on BaseSpace Sequence Hub, refer to the BaseSpace Sequence Hub support site page.

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To plan your run locally (on instrument), use the MiSeq i100 Series Control Software or Illumina Run Manager on a networked computer.

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After sequencing, on-instrument analysis starts automatically. CBCL data and DRAGEN secondary analysis output files are stored in the selected output folder. For more information, refer to Create a Local Planned Run.

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To set up a sequencing run without a run planning step for custom analysis pipelines, refer to Start a Manual Run (Generate BCL Files).