> For the complete documentation index, see [llms.txt](https://knowledge.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://knowledge.illumina.com/instrumentation/miniseq/instrumentation-miniseq-faq-list/000005571.md).

# Run setup modes for the MiniSeq

**Windows 10 with Local Run Manager (LRM) v2**\
The run setup mode is selected after selecting Sequence on the home screen.**Local Run Manager Mode**

* Create the run in LRM and select the run from within the control software.
* Data can be uploaded to BaseSpace Sequence Hub (BSSH), if desired.

**Standalone (Manual) Mode**

* Set up the run directly in the MiniSeq Control Software.
* Data can be uploaded to BaseSpace Sequence Hub (BSSH), if a sample sheet is provided.

**Windows 7 with LRM v1**

Run Setup Modes are selected by navigating to Manage Instrument -> System Configuration.

**BaseSpace Mode**

* Create the run in BaseSpace Prep Tab.

**Local Run Manager Mode**

* Create the run in LRM and select the run from within the control software.
* Run cannot be uploaded to BSSH.

**Standalone (Manual) Mode**

* Set up the run in the control software.
* Run cannot be uploaded to BSSH.

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| *For any feedback or questions regarding this article (Illumina Knowledge Article #5571), contact Illumina Technical Support* [*techsupport@illumina.com*](mailto:techsupport@illumina.com?subject=Question%2FFeedback%20Regarding%20Illumina%20Knowledge%20Article%20#000005571%20-%20Instrumentation%20\&body=Dear%20Illumina%20Technical%20Support,%0D%0A%0D%0A)*.* |


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