# Sequencer Auto-launch Analyses Compatibility

This page provides guidance on sequencer compatibility with different versions of DRAGEN secondary analysis pipelines and applications with auto-launch capabilities. This includes:

* Pipelines with [cloud analysis auto-launch](https://help.connected.illumina.com/analysis/analysis_autolaunch). This type of workflow is available for BaseSpace and ICA users and includes automatic launch of secondary analysis in the cloud after sequencing completion.
* Applications installed onboard of sequencers and on DRAGEN servers paired with sequencers. These type of applications allow you to configure settings for the run and analysis upfront and launch secondary analysis automatically after sequencing completes.
* Tertiary analysis compatibility. Click on underlined versions in the table to view details on pipelines’ compatibility with Emedgene and Illumina Connected Insights.

This table does not cover all DRAGEN pipelines and applications. If a pipeline is not included in the table, it means that the auto-launch may not be available for it at all or not available for a specific instrument/pipeline combination. In this case, the pipeline could be used with the instrument if launched manually in BaseSpace, ICA or on the DRAGEN server. Non-DRAGEN pipelines are not included. Please check [Local Run Manager materials](https://support.illumina.com/sequencing/sequencing_software/local-run-manager.html) and other resources on [Illumina Support Center](https://support.illumina.com/) for additional onboard applications.

<table data-header-hidden data-full-width="true"><thead><tr><th width="164"></th><th width="131"></th><th width="140"></th><th width="121"></th><th width="122"></th><th width="152"></th><th width="151"></th><th width="105"></th><th width="163"></th><th></th><th></th><th></th><th></th><th></th></tr></thead><tbody><tr><td>Pipeline</td><td><strong>NextSeq</strong><br><strong>1000/2000</strong></td><td><strong>NextSeq</strong><br><strong>1000/2000</strong></td><td><strong>NovaSeq X</strong><br><strong>Series</strong></td><td><strong>NovaSeq X</strong><br><strong>Series</strong></td><td><strong>NovaSeq</strong><br><strong>6000 Dx (RUO mode)</strong></td><td><strong>NovaSeq</strong><br><strong>6000 Dx (RUO mode)</strong></td><td><strong>NovaSeq 6000</strong></td><td><strong>NextSeq</strong><br><strong>500/550/550 Dx (RUO mode)</strong></td><td><strong>MiSeq i100</strong></td><td><strong>MiSeq i100</strong></td><td><strong>MiSeq</strong></td><td><strong>MiniSeq</strong></td><td><strong>iSeq 100</strong></td></tr><tr><td></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:purple;">Onboard</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:purple;">Onboard</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:purple;">Paired server</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:purple;">Onboard</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:orange;">Cloud</mark></td><td><mark style="background-color:orange;">Cloud</mark></td></tr><tr><td><strong>BCL Convert</strong></td><td><mark style="color:orange;">v4.2.7</mark><br><mark style="color:orange;">v3.10.4</mark><br><mark style="color:orange;">v3.8.4</mark><br><mark style="color:orange;">v3.7.4</mark><br><mark style="color:orange;">v3.5.8</mark><br><mark style="color:orange;">v3.5.6</mark></td><td><p><mark style="color:purple;">v4.2.9</mark></p><p><mark style="color:purple;">v4.2.7</mark><br><mark style="color:purple;">v3.10.12</mark><br><mark style="color:purple;">v3.10.11</mark><br><mark style="color:purple;">v3.9.3</mark><br><mark style="color:purple;">v3.8.4</mark><br><mark style="color:purple;">v3.7.4</mark><br><mark style="color:purple;">v3.5.8</mark><br><mark style="color:purple;">v3.5.6</mark></p></td><td><p><mark style="color:orange;">v4.3.13</mark></p><p><mark style="color:orange;">v4.1.23</mark><br><mark style="color:orange;">v4.1.7</mark></p></td><td><p><mark style="color:purple;">v4.3.13</mark></p><p><mark style="color:purple;">v4.1.23</mark><br><mark style="color:purple;">v4.1.7</mark><br><mark style="color:purple;">v4.1.5</mark></p></td><td><mark style="color:orange;">v3.8.4</mark></td><td><mark style="color:purple;">v3.9.5</mark></td><td><mark style="color:orange;">v3.8.4</mark></td><td></td><td><mark style="color:orange;">v1.0.31</mark></td><td>v1.0.31</td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Germline</strong></td><td><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.2.9</mark></a></p><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.2.7</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.10.12</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.10.4</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.8.4</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.7.4</mark><br></a><mark style="color:orange;">v3.5.8</mark><br><mark style="color:orange;">v3.5.6</mark></p></td><td><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v4.2.7</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.10.12</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.8.4</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.7.4</mark></a><br><mark style="color:purple;">v3.5.8</mark><br><mark style="color:purple;">v3.5.6</mark></td><td><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.1.23</mark></a><a data-footnote-ref href="#user-content-fn-1"><br></a><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.1.7</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.1.5</mark></a></p></td><td><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v4.1.23</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v4.1.7</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v4.1.5</mark></a></p></td><td></td><td><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.9.5</mark></a></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Enrichment</strong></td><td><a data-footnote-ref href="#user-content-fn-2"><mark style="color:orange;">v4.2.7</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.10.4</mark><br></a><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.8.4</mark><br></a><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v3.7.4</mark></a><br><mark style="color:orange;">v3.5.8</mark><br><mark style="color:orange;">v3.5.6</mark></td><td><a data-footnote-ref href="#user-content-fn-2"><mark style="color:purple;">v4.2.7</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.10.12</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.8.4</mark></a><br><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v3.7.4</mark></a><br><mark style="color:purple;">v3.5.8</mark><br><mark style="color:purple;">v3.5.6</mark></td><td><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:orange;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-2"><mark style="color:orange;">v4.1.23</mark></a><a data-footnote-ref href="#user-content-fn-2"><br></a><a data-footnote-ref href="#user-content-fn-2"><mark style="color:orange;">v4.1.7</mark></a><br><a data-footnote-ref href="#user-content-fn-2"><mark style="color:orange;">v4.1.5</mark></a></p></td><td><p><a data-footnote-ref href="#user-content-fn-1"><mark style="color:purple;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-2"><mark style="color:purple;">v4.1.23</mark></a><br><a data-footnote-ref href="#user-content-fn-2"><mark style="color:purple;">v4.1.7</mark></a><br><a data-footnote-ref href="#user-content-fn-2"><mark style="color:purple;">v4.1.5</mark></a></p></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Amplicon</strong></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a><br><a data-footnote-ref href="#user-content-fn-4"><mark style="color:orange;">v4.2.7</mark><br></a><a data-footnote-ref href="#user-content-fn-5"><mark style="color:orange;">v3.10.12</mark></a><br><a data-footnote-ref href="#user-content-fn-5"><mark style="color:orange;">v3.10.4</mark></a><br><a data-footnote-ref href="#user-content-fn-5"><mark style="color:orange;">v3.8.4</mark></a></td><td><a data-footnote-ref href="#user-content-fn-4"><mark style="color:purple;">v4.2.7</mark></a><br><a data-footnote-ref href="#user-content-fn-5"><mark style="color:purple;">v3.10.12</mark></a><br><a data-footnote-ref href="#user-content-fn-5"><mark style="color:purple;">v3.8.4</mark></a><br></td><td></td><td></td><td></td><td></td><td></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a><br><a data-footnote-ref href="#user-content-fn-4"><mark style="color:orange;">v4.2.7</mark></a></td><td></td><td></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a><br><a data-footnote-ref href="#user-content-fn-4"><mark style="color:orange;">v4.2.7</mark></a></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a><br><a data-footnote-ref href="#user-content-fn-4"><mark style="color:orange;">v4.2.7</mark></a></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a><br><a data-footnote-ref href="#user-content-fn-4"><mark style="color:orange;">v4.2.7</mark></a></td></tr><tr><td><a data-footnote-ref href="#user-content-fn-6"><strong>DRAGEN TruSight Oncology 500</strong></a></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></td><td></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></td><td></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.5.2</mark></a><br><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.1.2</mark></a></p></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v2.6.0</mark></a></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.5.2</mark></a><br><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.1.2</mark></a></p></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v2.6.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v2.5.2</mark></a><br><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v2.1.1</mark></a></p></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN TruSight Oncology 500 ctDNA</strong></td><td></td><td></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.1</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></p></td><td></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.1</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.5.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.1.1</mark></a></p></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v2.6.1</mark></a></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.1</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.6.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.5.0</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v2.1.1</mark></a></p></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN RNA</strong></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.2.9</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.2.7</mark></a><br><mark style="color:orange;">v3.10.4</mark><br><mark style="color:orange;">v3.8.4</mark><br><mark style="color:orange;">v3.7.4</mark><br><mark style="color:orange;">v3.5.8</mark><br><mark style="color:orange;">v3.5.6</mark></p></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.2.9</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.2.7</mark></a><br><mark style="color:purple;">v3.10.12</mark><br><mark style="color:purple;">v3.8.4</mark><br><mark style="color:purple;">v3.7.4</mark><br><mark style="color:purple;">v3.5.8</mark><br><mark style="color:purple;">v3.5.6</mark></p></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.1.23</mark></a><a data-footnote-ref href="#user-content-fn-3"><br></a><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.1.7</mark><br></a><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.1.5</mark></a></p></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.1.23</mark></a><br><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.1.7</mark></a><br><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.1.5</mark></a></p></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Methylation</strong></td><td></td><td></td><td><p><mark style="color:orange;">v4.3.13</mark></p><p><mark style="color:orange;">v4.1.23</mark></p></td><td><p><mark style="color:purple;">v4.3.13</mark></p><p><mark style="color:purple;">v4.1.23</mark></p></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Single Cell RNA</strong></td><td><mark style="color:orange;">v4.2.7</mark><br><mark style="color:orange;">v3.10.4</mark><br><mark style="color:orange;">v3.8.4</mark><br><mark style="color:orange;">v3.7.4</mark></td><td><mark style="color:purple;">v4.2.7</mark><br><mark style="color:purple;">v3.10.12</mark><br><mark style="color:purple;">v3.8.4</mark><br><mark style="color:purple;">v3.7.4</mark></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Somatic</strong></td><td></td><td></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:orange;">v4.1.23</mark></a></p></td><td><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.3.13</mark></a></p><p><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.1.23</mark></a></p></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN for DNA Prep with Enrichment</strong></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN cfDNA Prep with Enrichment</strong></td><td></td><td></td><td></td><td></td><td></td><td><a data-footnote-ref href="#user-content-fn-3"><mark style="color:purple;">v4.0.3</mark></a></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Protein Quantification</strong></td><td></td><td></td><td><p><mark style="color:orange;">v1.8.33</mark></p><p><mark style="color:orange;">v1.7.80</mark></p></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>NanoString GeoMx NGS Pipeline</strong></td><td><mark style="color:orange;">v2.0.21</mark></td><td></td><td><mark style="color:orange;">v2.0.21</mark></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN COVIDSeq Test</strong></td><td><mark style="color:orange;">v1.3.0</mark></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Library QC</strong></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td><mark style="color:orange;">v4.3.13</mark></td><td><a data-footnote-ref href="#user-content-fn-7"><mark style="color:purple;">v4.3.13</mark></a></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Small WGS</strong></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td><mark style="color:orange;">v4.3.13</mark></td><td><a data-footnote-ref href="#user-content-fn-7"><mark style="color:purple;">v4.3.13</mark></a></td><td></td><td></td><td></td></tr><tr><td><strong>DRAGEN Microbial Enrichment Plus</strong></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td></td><td><mark style="color:orange;">v4.3.13</mark></td><td><a data-footnote-ref href="#user-content-fn-8"><mark style="color:purple;">v4.3.13</mark></a></td><td></td><td></td><td></td></tr></tbody></table>

[^1]: * Compatible with Emedgene

[^2]: * Compatible with Illumina Connected Insights
    * Compatible with Emedgene

[^3]: * Compatible with Illumina Connected Insights

[^4]: * Compatible with Illumina Connected Insights
    * Compatible with Emedgene (DNA only)

[^5]: * Compatible with Emedgene (DNA only)

[^6]: * With or without HRD

[^7]: * Onboard app v1.0.13

[^8]: * Onboard app v1.0.41


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