How to Specify Adapters for Trimming in Local Run Manager

How to Specify Adapters for Trimming in Local Run Manager

1. From the Module-Specific Settings section of the Create Run screen, select "Show Advanced Settings".

2. Select "+ Add custom setting."

3. In the custom setting field, enter the setting name, in this case: "Adapter."

4. In the setting value field, enter the setting value. In order to specify 2 different adapter sequences for Read 1, type in the two sequences separated with a plus (+) sign. These will be assessed as separate adapters.

1. If a Read 2 adapter trimming sequence is also needed, repeat steps 2 - 4, but use the setting name "AdapterRead2." In order to specify 2 different adapter sequences for Read 2, type in the two sequences separated with a plus (+) sign. These will be assessed as separate adapters.

2. To remove a setting, select the "X".

For any feedback or questions regarding this article (Illumina Knowledge Article #3678), contact Illumina Technical Support [e-mail].