> For the complete documentation index, see [llms.txt](https://knowledge.illumina.com/llms.txt). Markdown versions of documentation pages are available by appending `.md` to page URLs; this page is available as [Markdown](https://knowledge.illumina.com/microarray/general/microarray-general-reference_material-list/000009271.md).
# Where to find Microarray sample quality metrics in DRAGEN Array Cytogenetics and Emedgene
### **DRAGEN Array Cytogenetics Analysis**
**cyto call** command generates **gt\_sample\_summary** file (CSV or JSON) which provides the following metrics:
Autosomal Call Rate
Call Rate
Log R Ratio Std Dev
Sex Estimate
**cyto annotate** command generates **cyto annotation** file (JSON) per sample to report sample-level, chromosome-level, and event-level metrics and annotations. See DRAGEN Array User Guide [Cytogenetics Annotation JSON file](https://help.dragenarray.illumina.com/product-guides/output-files#cytogenetics-annotation-json-file) for more details on the reported metrics.
### **Emedgene**
#### **Lab Tab**
Under "SAMPLE QUALITY" section the following metrics are available:
Family Member
Quality
Sex Validation
Autosomal Call Rate
Call Rate
Log R Dev
For additional details regarding these metrics, see Emedgene User Guide: [Lab tab](https://help.emg.illumina.com/emedgene-analyze-manual/reviewing_a_case/lab_tab) and [Sample quality section](https://help.emg.illumina.com/emedgene-analyze-manual/reviewing_a_case/lab_tab/sample-quality-section).
Under the Sample ID name, click **Dragen report** link to open **Cytogenetics Array Report**. This page contains sample and chromosomal information derived from the DRAGEN Array **cyto annotation** JSON file.
**Sample Quality**
Sample Sex
% LoH
Median CN
Call Rate
Log R Dev
**Chromosome Quality**
% Het
LRR Median
LRR Dev
% LoH
Median CN
Mean CN
#### **Analysis Tools tab**
Click on a variant from the list and the Variant page window pops up. Select Quality on the left menu. Under "Quality" section the following metrics are available:
VCF Filter
Likelihood Ratio
Mean LRR
Copy Number
Mosaic Fraction
CNV Quality
Size
Bin Count
For additional details regarding these metrics, see Emedgene User Guide [Variant page](https://help.emg.illumina.com/emedgene-analyze-manual/variant_page/variant_page) and [Quality tab](https://help.emg.illumina.com/emedgene-analyze-manual/variant_page/quality_section).
For more information, see [DRAGEN Array User Guide](https://help.dragenarray.illumina.com/) and [Emedgene User Guide](https://help.emg.illumina.com/).
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