Sample Sheets

The sample sheet is a comma-delimited file (SampleSheet.csv) that stores the information needed to set up and analyze a sequencing experiment. The file includes a list of samples, their index sequences, and the sequencing workflow.

Every run in BaseSpace Sequence Hub requires an associated sample sheet to define projects and samples, assign indexes, and run workflow apps.

Use Illumina Experiment Manager software to set up a sample sheet for your library prep protocol.


BaseSpace Sequence Hub maps sample sheet data to biosamples and libraries in your account. To make sure the data in your sample sheet are associated correctly, upload your biosamples before you upload the sample sheet. For more information, see Biosample Workflow.