# Sample quality section

## Sample quality metrics

The Sample quality section in the Lab tab gives you a quick view of the reliability of sequencing or array data used in your case.

The metrics displayed in the Sample quality section and their underlying calculation vary depending on the case type (see below).

{% columns %}
{% column width="50%" %}

<table><thead><tr><th width="276.72735595703125">NGS case</th></tr></thead><tbody><tr><td><a href="sample-quality-section/ngs-sample-quality-metrics/ngs-sample-quality">Sample quality</a> (overall)</td></tr><tr><td><a href="sample-quality-section/ngs-sample-quality-metrics/ngs-sex-validation">Sex validation</a></td></tr><tr><td><a href="sample-quality-section/ngs-sample-quality-metrics/ploidy">Ploidy</a>*</td></tr><tr><td><a href="sample-quality-section/ngs-sample-quality-metrics/contamination">Contamination</a></td></tr><tr><td><p><a href="sample-quality-section/ngs-sample-quality-metrics/coverage">Coverage metrics</a>:</p><ul><li>Average coverage</li><li>% Bases with coverage >10x</li><li>% Bases with coverage >20x</li></ul></td></tr><tr><td><a href="sample-quality-section/ngs-sample-quality-metrics/percentage-of-mapped-reads">% Mapped reads</a></td></tr><tr><td><a href="sample-quality-section/ngs-sample-quality-metrics/sequencing-error-rate">Error rate</a></td></tr></tbody></table>

\*<sub>*Available only for whole genome FASTQ cases.*</sub>
{% endcolumn %}

{% column width="50%" %}

<table><thead><tr><th width="276.72735595703125">Array case</th></tr></thead><tbody><tr><td><a href="sample-quality-section/array-sample-quality-metrics/array-sample-quality">Sample quality</a> (overall)</td></tr><tr><td><a href="sample-quality-section/array-sample-quality-metrics/array-sex-validation">Sex validation</a></td></tr><tr><td><a href="sample-quality-section/array-sample-quality-metrics/autosomal-call-rate">Autosomal call rate</a></td></tr><tr><td><a href="sample-quality-section/array-sample-quality-metrics/call-rate">Call rate</a></td></tr><tr><td><a href="sample-quality-section/array-sample-quality-metrics/log-r-deviation">Log R deviation</a></td></tr></tbody></table>
{% endcolumn %}
{% endcolumns %}

## DRAGEN QC

For [eligible cases](https://help.connected.illumina.com/emedgene/emedgene-analyze-manual/reviewing_a_case/lab_tab/dragen-qc-report#prerequisites-for-accessing-the-dragen-qc-report), users can also review the results of [DRAGEN QC](https://help.connected.illumina.com/emedgene/emedgene-analyze-manual/reviewing_a_case/lab_tab/sample-quality-section/dragen-qc-report): interactive DRAGEN QC report and DRAGEN QC metric files.

{% hint style="info" %}
DRAGEN QC for array samples is available from version 100.39.0 onwards.
{% endhint %}