# Welcome to DRAGEN Array DRAGEN (Dynamic Read Analysis for GENomics) Array secondary analysis is a powerful bioinformatics software for Illumina Infinium array-based assays. DRAGEN Array uses cutting-edge data analysis tools to provide accurate, comprehensive, and highly efficient secondary analysis to maximize genomic insights and meet your research needs across multiple applications. DRAGEN Array is offered as a local package with command-line interface (no specialized server or hardware required) and as a cloud-based package with an intuitive graphical user interface, as summerized in the table below.

	Description	Key features
Genotyping	Provides genotyping results for any human Infinium genotyping array.	Greater than 99.5% genotyping accuracy Genotyping VCF in as little as 35 seconds per sample
PGx – CNV calling	Provides CNV calling on 7 target PGx genes across 10 target regions, plus genotyping outputs for Infinium microarrays with enhanced PGx content.	Greater than 95% PGx CNV accuracy
PGx – star allele annotation	Provides PGx star allele and variant coverage across 2400+ targets for over 50 genes, plus PGx CNV and genotyping outputs for Infinium microarrays with enhanced PGx content.	Assess hard to discern PGx genes, including the elusive CYP2D6 with greater than 97% call rate Obtain all PGx analysis results in ~1 minute per sample
Methylation QC	Provides high-throughput, quantitative methylation quality control for Infinium methylation arrays.	21 algorithm-based quantitative control metrics with adjustable thresholds Data summary plots Proportion of CG probes passing with user defined p-value threshold
Cytogenetics analysis	Provides cytogenetic CNV calling and LOH (loss of heterozygosity) detection for human Infinium arrays.	Multiple output formats including CNV/LOH VCFs, annotated QC JSONs, and bedgraph files for Log R Ratio and B-Allele Frequency visualization Adjustable algorithm thresholds such as minimum deletion, duplication, and LOH sizes and smoothing parameters
Cytogenetics analysis + Emedgene interpretation	Provides cytogenetic CNV calling and LOH (loss of heterozygosity) detection for human Infinium arrays with added visualization and case management in Emedgene	Multiple output formats including CNV/LOH VCFs, annotated QC JSONs, and bedgraph files for Log R Ratio and B-Allele Frequency visualization Adjustable algorithm thresholds such as minimum deletion, duplication, and LOH sizes and smoothing parameters

This product documentation describes the installation and setup, analysis execution, and result outputs. For the latest updates and release details, see the [DRAGEN Array Release Notes](https://help.dragenarray.illumina.com/reference/release-notes). See [Introducing DRAGEN™ Array 1.0 for Infinium™ Array-Based Pharmacogenomics Analysis](https://developer.illumina.com/news-updates/introducing-dragen-array-1-0-for-infinium-array-based-pharmacogenomics-analysis) for additional details on DRAGEN Array genotyping, PGx CNV calling and PGx star allele annotation. --- # Agent Instructions: Querying This Documentation If you need additional information that is not directly available in this page, you can query the documentation dynamically by asking a question. Perform an HTTP GET request on the current page URL with the `ask` query parameter: ``` GET https://help.dragenarray.illumina.com/overview/readme.md?ask= ``` The question should be specific, self-contained, and written in natural language. The response will contain a direct answer to the question and relevant excerpts and sources from the documentation. Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.