# Local Sample Sheet Generation Tool

The Run Planning web interface, accessible via [Base Space Sequence Hub (BSSH)](https://www.illumina.com/products/by-type/informatics-products/basespace-sequence-hub.html), requires internet connection. The Proteomics Sample Sheet Generator tool (linked below) allows for offline creation of sample sheets compatible with the local DRAGEN Protein Quantification application.

## Prerequisites

1. Local Proteomics Sample Sheet Generator Excel Workbook.
2. One or more IPPAS output files (one per plate).
3. Access to a DRAGEN Server configured to the Illumina Protein Quantification Local Secondary Analysis (see prerequisites page for more information).

## Steps

1. Download and open the Local Proteomics Sample Sheet Generator excel file.
2. Navigate to the Start tab and follow the instructions described in the upper left portion of the sheet:
   1. Fill in the `RunName` and output\_file\_prefix.
   2. Change the `InstrumentPlatform` as needed.
   3. Copy and paste values from IPPAS output file(s) not including the headers into the specified fields.
   4. Add the Flow Cell lanes for each sample as a comma separated list with no spaces as needed.
   5. Ensure there are no errors displayed in the Row Check or Overall Check (a green cell is expected)
   6. Navigate to the "SaveAsCSV" and save it as CSV Comma-Delimited (filename must not contain special characters).
   7. Once the sample sheet is generated, update `LibraryPrepKits` under section `[Sequencing_Settings]` to "IlluminaProteinPrepKit9.5k". This change is required for compatibility with the latest local DRAGEN Protein Quantification.
3. (Recommended) Load this sample sheet onto the sequencer prior to sequencing.
   1. If the sample sheet is not included prior to sequencing, the user must manually reference the sample sheet when running DRAGEN Protein Quantification later.
4. Analyze the data locally using a DRAGEN Server with DRAGEN Protein Quantification Pipeline (see [Local Secondary Analysis page](/dragen-protein-quantification/counting-and-normalization/local-secondary-analysis.md) for more information).

### Proteomics Sample Sheet Generator

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