> For the complete documentation index, see [llms.txt](https://help.dragenarray.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://help.dragenarray.illumina.com/product-guides/dragen-array-cloud-analysis/overview/dragen-array-genotyping.md).

# DRAGEN Array Genotyping and QC

## Custom Configuration Options

When using **DRAGEN Array – Genotyping and QC** cloud analysis type, you have the following configuration options available via the "Add Custom Configuration" option in Configuration Settings:

* **Output File Selection**: Flexibility to turn off/on specific output files
  * VCF output can be toggled on or off
  * Final Report output can be toggled on or off
  * Locus Summary output can be toggled on or off
* **GenCall Score Cutoff**: Adjustable threshold for genotype calling quality
  * Override default GenCall score cutoff
* **Use Infinium I probe no-calls**: Constrain possible genotypes using Infinium I probe no-call information.
* **QC Report Output Format**: Excel (xlsx) - default or CSV format. For more information, see [DRAGEN Array QC Report](/product-guides/dragen-array-local-analysis/qc-report.md).

## Recommendations

* **For non-human species**: It is recommended to turn off VCF output, as VCF generation requires genome mapping which is only provided for human genomes (GRCh37 and GRCh38).
* **For large sample numbers (\~400+ samples)**: It is recommended to turn off Final Report output, as Final Report files can reach 50+ GB and become difficult to download.

## Applicable Arrays

For specific product compatibility, see the [Product & Analysis Compatibility](/overview/our-features.md#product_compatibility) table.


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