# Switching between AutoLoader Mode and Manual Mode when using iScan

To run the iScan System without the AutoLoader 2.x, switch the reader into Manual mode.\
To return to using AutoLoader 2.x, simply switch the readers back into AutoLoader mode.

Switching from AutoLoader 2.x Mode to Manual Mode\
To switch the reader from AutoLoader 2.x mode to Manual mode:

1. Complete all automated scans.
2. Remove all carriers from the AutoLoader 2.x input stacks.
3. Select the Menu button and select Exit.\
   ![](/files/SJ6poLBQJFyENUZHphcs)
4. Restart the iScan Control Software.\
   The iScan Control Software prompts the user to run the iScan system in AutoLoader mode or Manual mode.\
   ![](/files/FO1TmNUxDnOL4UNETTF4)
5. Select No to run the iScan System in Manual mode.\
   For information on manual scanning, refer to the [iScan System Guide](https://support-docs.illumina.com/ARR/iScan/Content/ARR/FrontPages/iscan.htm).

Switching from Manual Mode to AutoLoader 2.x Mode\
To switch the reader from Manual mode to AutoLoader 2.x mode:

1. Complete all manual scans.
2. Place the carriers to be scanned on the AutoLoader 2.x input stacks.
3. To run the AutoLoader 2.x in dual-reader mode, make sure the iScan Control Software is closed on the remote reader.
4. Follow the instructions for scanning BeadChips using an AutoLoader 2.x. Refer to section on Scan BeadChips with AutoLoader 2.x in the [AutoLoader 2.x Product Documentation](https://support.illumina.com/downloads/autoloader_2x_user_guide_\(15015394_a\).html).

**Additional resources**

* [AutoLoader 2.x Product Documentation](https://support.illumina.com/downloads/autoloader_2x_user_guide_\(15015394_a\).html)
* [iScan System Product Documentation](https://support.illumina.com/downloads/iscan-system-product-documentation.html)

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| *For any feedback or questions regarding this article (Illumina Knowledge Article #5545), contact Illumina Technical Support* [*techsupport@illumina.com*](mailto:techsupport@illumina.com?subject=Question%2FFeedback%20Regarding%20Illumina%20Knowledge%20Article%20#000005545%20-%20Microarray%20\&body=Dear%20Illumina%20Technical%20Support,%0D%0A%0D%0A)*.* |


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