# DRAGEN Array PGx CNV Calling

## Quality Control Recommendations

For PGx CNV calling, it is recommended that 96 or more samples passing LogRDev <= 0.2 are included in the analysis. The metric is provided in the genotyping sample summary file (gt\_sample\_summary.csv). For more details, see the explanation for the [local analysis](https://help.connected.illumina.com/dragen-array/dragen-array-local-analysis#run-dragen-array-local).

## Semi-Custom PGx Products

### Running Semi-Custom PGx Analysis on Cloud

Detailed notes on running this analysis for local can be found [here](https://github.com/illumina-swi/dragen-array-docs/blob/DAv1.3/docs/product-guides/dragen-array-cloud-analysis/dragen-array-local-analysis/README.md#pharmacogenomic-analysis-for-semi-custom-arrays). But for cloud, a workaround is necessary because semi-custom product samples are filtered from the BeadChip table in BaseSpace. Follow these steps:

1. Select an existing commercial product configuration (e.g., `GDA_PGx-8v1-0_G4 - GRCh38`)
2. Kick off an analysis using the **Import Sample Sheet** option for the semi-custom product samples

## Applicable Arrays

For specific product compatibility, see the [Product & Analysis Compatibility](https://help.connected.illumina.com/dragen-array/overview/our-features#_product_compatability) table.