> For the complete documentation index, see [llms.txt](https://help.ffpe-exomev2p5.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.ffpe-exomev2p5.illumina.com/readme.md).

# Illumina FFPE DNA Prep with Exome 2.5 Enrichment

llumina FFPE DNA Prep with Exome 2.5 Enrichment is part of an integrated whole-exome sequencing (WES) Tumor-Normal workflow to deliver variant calling and biomarker analysis in low-input formalin-fixed paraffin-embedded (FFPE) samples. This page provides software user guides to Illumina's cloud-based and on-premise solutions for the data analysis of this library preparation kit.

The software performs the following workflows to analyze sequencing data.

* DNA Mapping and Aligning
* Somatic Small Variant (SNV) Caller
* Copy Number Variant (CNV) Caller
* Tumor Mutational Burden (TMB)
* Microsatellite Instability (MSI)
* Homologous Recombination Deficiency (HRD)
* Variant annotation

{% hint style="info" %}
Structural Variant (SV) caller results have not been evaluated for accuracy. Calculations for SV can add significant runtime to the analysis.
{% endhint %}


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