> For the complete documentation index, see [llms.txt](https://help.bioinsight.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.bioinsight.illumina.com/emedgene/emedgene-analyze-manual/variant-visualization/variant_visualization_setup/integration_between_emedgene_and_desktop_igv.md).

# Integration between Emedgene and desktop IGV

While navigating between variants in the Emedgene platform, there is an option to change the genomic position in the full-featured [IGV](http://software.broadinstitute.org/software/igv/home) desktop application according to the currently selected variant.

Emedgene integrates with the **desktop IGV (Integrative Genomics Viewer)**, allowing you to synchronize genomic navigation between the platform and IGV.

### How it works?

* When you move between variants in Emedgene, IGV automatically updates to display the same genomic position.
* Enables deeper manual review of mapping data, particularly for **ambiguous** or **low-quality** variants.

In order to enable or disable control of IGV from a web browser, please open your desktop IGV application and follow the instructions:

1. Go to the *View* menu and select *Preferences*.

![](https://1131024994-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FGCW0DnLlE7QjoZPNmKIi%2Fuploads%2Fgit-blob-659106d460514bf67ea40f3e156d93c8a1793d76%2Fintegration_between_emedgene_and_desktop_igv_1_STE.png?alt=media)

2. Go to the *Advanced* tab.

![](https://1131024994-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FGCW0DnLlE7QjoZPNmKIi%2Fuploads%2Fgit-blob-4f1d2efa3a80315aa46a7b4c4d07d0c6b63f5411%2Fintegration_between_emedgene_and_desktop_igv_2_STE.png?alt=media)

3. Select or unselect the *Enable port* option to enable or disable the feature, respectively.

![](https://1131024994-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FGCW0DnLlE7QjoZPNmKIi%2Fuploads%2Fgit-blob-552636e9baadaa3dbe31023dc12de96ddd2c840b%2Fintegration_between_emedgene_and_desktop_igv_3_STE.png?alt=media)

4. Save the changes.

![](https://1131024994-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FGCW0DnLlE7QjoZPNmKIi%2Fuploads%2Fgit-blob-d7d5e1be111e17f03d7dc5370d57dda26d43b196%2Fintegration_between_emedgene_and_desktop_igv_4_STE.png?alt=media)

Ensure IGV integration is turned on in the **Desktop Apps** panel of the variant page sidebar.


---

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