# DRAGEN Product Obsolescence Notices ## DRAGEN Secondary Analysis - End of Life Roadmap This section refers to DRAGEN Secondary Analysis package versions for use on-prem and BYOL | Version | Date of Obsolescence | | ----------------- | -------------------- | | v3.3 and lower | June 1, 2025 | | v3.9 and lower\* | December 1, 2025 | | v3.10 and lower\* | June 1, 2026 | \*v3.7.8 and v3.9.5 will continue to be supported by Illumina indefinitely After the dates of obsolescence, there will be no further updates, improvements, bug fixes, or support for the affected versions. Customers will no longer have access to download installers, release notes, and user guides after date of obsolescence. ## DRAGEN BSSH/ICA Workflows - End of Life Roadmap **The DRAGEN Support Team strongly recommends transitioning to F2 enabled workflows by November 20, 2025 to ensure a smooth transition and minimize analysis delays as F1 instances are taken offline.** Amazon Web Services’ announcement in 2024 that their F1 instances will be replaced by a new generation of FPGA-powered cloud hardware, Amazon EC2 F2 instances, throughout 2025. F1 instances will be phased out of service and made obsolete by December 20, 2025. DRAGEN pipelines on ICA and BSSH make use of these F instances to run FPGA-accelerated DRAGEN analysis workflows in the cloud. To ensure uninterrupted service, Illumina is releasing updated versions of DRAGEN pipelines compatible with F2 instances within the same time frame. This change impacts all DRAGEN pipelines before v4.4.4. In addition to having ongoing AWS support, F2 instances introduce capacity and performance improvements with up to 40% reduced turnaround time for analysis (runtime and queue times). F2-compatible DRAGEN versions of BSSH and ICA apps are being made available for a subset of current versions (see tables below). Upgrade pathways described in Tables 1 and 2 will produce read, variant, and metric exact results on F2 instances. The transition from F1 to F2 will be accompanied by pricing changes for BSSH and ICA. DRAGEN pipelines running on F2 will incur the following DRAGEN License cost per gigabase of data processed in addition to an hourly [F-instance computer cost](https://help.ica.illumina.com/reference/r-pricing). | Gigabases per sample | iCredits per gigabase | | -------------------- | --------------------- | | <=80  | 0.10  | | >80 and <=160  | 0.08  | | >160 and <=240  | 0.07  | | >240 and <=320  | 0.06  | | >320  | 0.05  | Note: If your DRAGEN job fails, no DRAGEN license cost will be charged.  **F2 Regional Availability** | Region | Region Identifier | Are F2 Instances Available? | | ----------------------- | ----------------- | --------------------------- | | Australia - Sydney | AU | Yes | | Canada - Central | CA | Yes | | Germany - Frankfurt | EU | Yes | | India - Mumbai | IN | Yes | | Indonesia - Jakarta | ID | No\* | | Israel - Tel Aviv | IL | No\* | | Japan - Tokyo | JP | Yes | | South Korea - Seoul | KR | No\* | | Singapore | SG | Yes | | United Arab Emirates | AE | No\* | | United Kingdom - London | GB | Yes | | N. Virginia | US | Yes | \*We are coordinating with our underlying cloud provider and will share updates to this page as they become available **Table 1, ICA workflows + F2 patched versions** | Current Version | F2 Patched Version | Availability | | ---------------------------------------------------- | --------------------------------------------------------- | ------------- | | DRAGEN Amplicon DNA and RNA 4-2-4-v2 | DRAGEN\_Amplicon\_DNA\_and\_RNA\_4-2-4-2 | Available now | | DRAGEN Amplicon DNA and RNA 4-3-6 | DRAGEN\_Amplicon\_DNA\_and\_RNA\_4-3-6-1 | Available now | | DRAGEN CNV Baseline Builder 4-2-4-v2 | DRAGEN\_CNV\_Baseline\_Builder\_4-2-4-2 | Available now | | DRAGEN CNV Baseline Builder 4-3-6 | DRAGEN\_CNV\_Baseline\_Builder\_4-3-6-1 | Available now | | DRAGEN Germline Whole Genome 4-2-4-v2 | DRAGEN\_Germline\_Whole\_Genome\_4-2-4-2 | Available now | | DRAGEN\_Germline\_Whole\_Genome\_4-3-6\_v2 | DRAGEN\_Germline\_Whole\_Genome\_4-3-6-1 | Available now | | DRAGEN\_Germline\_Whole\_Genome\_4-3-13 | DRAGEN\_Germline\_Whole\_Genome\_4-3-13-1 | Available now | | DRAGEN Germline Enrichment 4-2-4-v2 | DRAGEN\_Germline\_Enrichment\_4-2-4-2 | Available now | | DRAGEN Germline Enrichment 4-3-6 | DRAGEN\_Germline\_Enrichment\_4-3-6-1 | Available now | | DRAGEN\_Germline\_Enrichment\_4-3-13 | DRAGEN\_Germline\_Enrichment\_4-3-13-1 | Available now | | DRAGEN for ILMN cfDNA Prep with Enrichment 4-0-3 | DRAGEN\_for\_ILMN\_cfDNA\_Prep\_with\_Enrichment\_4-0-3-1 | Available now | | DRAGEN Imputation 4-2-4 | DRAGEN\_Imputation\_4-2-4-2 | Available now | | DRAGEN Imputation 4-2-7-v3 | DRAGEN\_Imputation\_4-2-7-1 | Available now | | DRAGEN Joint Pedigree Calling 4-2-4-v2 | DRAGEN\_Joint\_Pedigree\_4-2-4-2 | Available now | | DRAGEN Joint Pedigree Calling 4-3-6 | DRAGEN\_Joint\_Pedigree\_4-3-6-1 | Available now | | DRAGEN End to End Joint Pedigree Calling 4-2-7 | DRAGEN\_End-to-End\_Joint\_Pedigree\_Calling\_4-2-7-1 | Available now | | DRAGEN End to End Joint Pedigree Calling 4-3-6 | DRAGEN\_End-to-End\_Joint\_Pedigree\_Calling\_4-3-6-1 | Available now | | DRAGEN\_End-to-End\_Joint\_Pedigree\_Calling\_4-3-13 | DRAGEN\_End-to-End\_Joint\_Pedigree\_Calling\_4-3-13-1 | Available now | | DRAGEN\_End-to-End\_Joint\_Pedigree\_Calling\_4-3-17 | F2 compatible, no upgrade required | Available now | | DRAGEN Methylation 4-3-6 | DRAGEN\_Methylation\_4-3-6-1 | Available now | | DRAGEN\_Methylation\_4-3-13 | DRAGEN\_Methylation\_4-3-13-1 | Available now | | DRAGEN MSI Baseline Builder 4-3-6 | DRAGEN\_MSI\_Baseline\_Builder\_4-3-6-1 | Available now | | DRAGEN\_Multigenome\_Reference\_Builder\_4-3-6 | DRAGEN\_Pangenome\_Reference\_Builder\_4-3-6 | Available now | | DRAGEN\_Pangenome\_VCF\_Builder\_4-3-6 | DRAGEN\_Pangenome\_VCF\_Builder\_4-3-6 | Available now | | DRAGEN RNA 4-2-4-v2 | DRAGEN\_RNA\_4-2-4-2 | Available now | | DRAGEN RNA 4-3-6 | DRAGEN\_RNA\_4-3-6-1 | Available now | | DRAGEN\_RNA\_4-3-13 | DRAGEN\_RNA\_4-3-13-1 | Available now | | DRAGEN\_Small\_WGS\_4-3-13 | DRAGEN\_Small\_WGS\_4-3-13-1 | Available now | | DRAGEN Somatic Whole Genome 4-2-4-v2 | DRAGEN\_Somatic\_Whole\_Genome\_4-2-4-2 | Available now | | DRAGEN Somatic Whole Genome 4-3-6 | DRAGEN\_Somatic\_Whole\_Genome\_4-3-6-1 | Available now | | DRAGEN\_Somatic\_Whole\_Genome\_4-3-13 | DRAGEN\_Somatic\_Whole\_Genome\_4-3-13-1 | Available now | | DRAGEN\_Somatic\_Whole\_Genome\_4-3-17 | F2 compatible, no upgrade required | Available now | | DRAGEN Somatic Enrichment 4-2-4-v2 | DRAGEN\_Somatic\_Enrichment\_4-2-4-2 | Available now | | DRAGEN Somatic Enrichment 4-3-6 | DRAGEN\_Somatic\_Enrichment\_4-3-6-1 | Available now | | DRAGEN\_Somatic\_Enrichment\_4-3-13 | DRAGEN\_Somatic\_Enrichment\_4-3-13-1 | Available now | | DRAGEN\_Somatic\_Enrichment\_4-3-17 | F2 compatible, no upgrade required | Available now | | DRAGEN Systematic Noise File Builder 4-2-4-v2 | DRAGEN\_Systematic\_Noise\_File\_Builder\_4-2-4-2 | Available now | | DRAGEN Systematic Noise File Builder 4-3-6 | DRAGEN\_Systematic\_Noise\_File\_Builder\_4-3-6-1 | Available now | | DRAGEN Reference Builder 4-2-4-v2 | DRAGEN\_Reference\_Builder\_4-2-4-2 | Available now | | DRAGEN Reference Builder 4-3-6 | DRAGEN\_Reference\_Builder\_4-3-6-1 (SW only mode) | Available now | **Table 2, BSSH apps + F2 patched versions** | Current Version | F2 Patched Version | Availability | | ----------------------------------------- | -------------------------------------------- | ------------- | | DRAGEN Baseline Builder v4.2.4 | DRAGEN Baseline Builder v4.2.4002 | Available now | | DRAGEN Baseline Builder v4.3.6 | DRAGEN Baseline Builder v4.3.6001 | Available now | | DRAGEN Enrichment v4.2.4 | DRAGEN Enrichment v4.2.4002 | Available now | | DRAGEN Enrichment v4.2.7 | DRAGEN Enrichment v4.2.7001 | Available now | | DRAGEN Enrichment v4.3.6 | DRAGEN Enrichment v4.3.6001 | Available now | | DRAGEN Enrichment v4.3.13 | DRAGEN Enrichment v4.3.13001 | Available now | | DRAGEN Germline v4.2.4 | DRAGEN Germline v4.2.4002 | Available Now | | DRAGEN Germline v4.3.6 | DRAGEN Germline v4.3.6001 | Available now | | DRAGEN Germline v4.3.13 | DRAGEN Germline v4.3.13001 | Available now | | DRAGEN ILMN cfDNA Prep v4.0.3 | DRAGEN ILMN cfDNA Prep v4.0.3001 | Available now | | DRAGEN Imputation v4.2.7 | DRAGEN Imputation v4.2.7001 | Available now | | DRAGEN Imputation v4.3.6 | DRAGEN Imputation v4.3.6001 | Available now | | DRAGEN Joint Genotyping v4.2.4 | DRAGEN Joint Genotyping v4.2.4002 | Available now | | DRAGEN Joint Genotyping v4.3.6 | DRAGEN Joint Genotyping v4.3.6001 | Available now | | DRAGEN Methylation v4.3.6 | DRAGEN Methylation v4.3.6001 | Available now | | DRAGEN Methylation v4.3.13 | DRAGEN Methylation v4.3.13001 | Available now | | DRAGEN Microbial Enrichment Plus v1.1.0 | DRAGEN Microbial Enrichment Plus v1.1.1 | Available now | | DRAGEN Pangenome Reference Builder v4.3.6 | DRAGEN Pangenome Reference Builder v4.3.6001 | Available now | | DRAGEN Pangenome VCF Builder v4.3.6 | DRAGEN Pangenome VCF Builder v5.0.0 | Available now | | DRAGEN Reference Builder v4.2.4 | DRAGEN Reference Builder v4.2.4002 | Available Now | | DRAGEN Reference Builder v4.3.6 | DRAGEN Reference Builder v4.3.6001 | Available now | | DRAGEN small WGS v4.3.13 | DRAGEN small WGS v4.3.13001 | Available now | | DRAGEN Somatic v4.2.4 | DRAGEN Somatic v4.2.4002 | Available now | | DRAGEN Somatic v4.2.7 | DRAGEN Somatic v4.2.7001 | Available now | | DRAGEN Somatic v4.3.6 | DRAGEN Somatic v4.3.6001 | Available now | | DRAGEN Somatic v4.3.13 | DRAGEN Somatic v4.3.13001 | Available now | | DRAGEN Somatic v4.3.17 | DRAGEN Somatic v4.3.17001 | Available now | Recommended transition paths for all other versions are summarized in tables 3 and 4 below. Applications using these transition paths are not receiving bit exact equivalent apps, and Illumina recommends upgrading to a more recent version of the release workflow when available. Because these upgrades use different underlying DRAGEN versions, the results will not have bit exact outputs. **Table 3, Recommended transition paths for all other DRAGEN ICA workflows using F1 instances** | Current Version | New F2 Patched Version | Availability | | ------------------------------------------------------------------------------------- | -------------------------------------------------------------------------------------------- | ------------- | | DRAGEN Amplicon v3.10.4, v4.0.3 | DRAGEN Amplicon DNA + RNA v4.4.4 | Available now | | DRAGEN CNV Baseline Builder v3.10.4, v4.0.3 | DRAGEN CNV Baseline Builder v4.4.4 | Available now | |

DRAGEN FASTQC + MultiQC DRAGEN
FASTQC/MultiQC v3.9.5

|

DRAGEN Germline WGS v4.4.4
(Map/Align provides the same functionality as this app)

| Available now | | DRAGEN Germline WGS v3.8.4, v3.9.5, v3.10.4, v3.10.8, v4.0.3, v4.0.5, v4.1.5, v4.1.23 | DRAGEN Germline WGS v4.4.4 | Available now | | DRAGEN Germline Enrichment v3.9.5, v3.10.4, v3.10.8, v4.0.3, v4.1.5, v4.1.23 | DRAGEN Germline Enrichment v4.4.4 | Available now | | DRAGEN Imputation v4.0.3 | DRAGEN Imputation v4.2.7-1 | Available now | |

DRAGEN Joint Genotyping v3.9.5
DRAGEN Joint Pedigree v3.10.4, v4.0.5

| DRAGEN Joint Pedigree v4.4.4 | Available now | | DRAGEN E2E Joint Pedigree v3.10.4, v4.0.3 | DRAGEN E2E Joint Pedigree v4.4.4 | Available now | | DRAGEN Methylation v3.9.5, v3.10.4, v4.0.3, v4.1.23 | DRAGEN Methylation v4.4.4 | Available now | | DRAGEN RNA v3.9.5, v3.10.4, v4.0.3, v4.1.5, v4.1.23 | DRAGEN RNA v4.4.4 | Available now | | DRAGEN scRNA v3.9.5, v4.0.3, v4.4.2 | DRAGEN scRNA v4.4.6 | Available now | | DRAGEN Somatic WGS v3.9.5, v3.10.4, v4.0.3, v4.0.5, v4.1.23 | DRAGEN Somatic WGS v4.4.4 | Available now | | DRAGEN Somatic Enrichment v3.10.4, v4.0.3, v4.1.5, v4.1.23 | DRAGEN Somatic Enrichment v4.4.4 | Available now | | DRAGEN Reference Builder v3.9.5, v3.10.4, v4.0.3 | No alternative app planned. Recommend moving to newer v4.3/v4.4 workflows. | N/A | **Table 4, Recommended transition paths for all other DRAGEN BSSH apps using F1 instances** | Current Version | New F2 Patched Version | Availability | | -------------------------------------------------------------------------------------------------------------------------------------------- | ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ | ----------------------- | | DRAGEN Amplicon v3.8.6, v3.9.5, v3.10.4, v4.2.4, v4.3.6, v4.3.13 | DRAGEN Amplicon v4.4.4 | Available now | | DRAGEN Baseline Builder v3.7.5, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.1.23 | DRAGEN Baseline Builder v4.4.4 | Available now | | DRAGEN Baseline Builder v4.3.7, v4.3.8 | DRAGEN Baseline Builder v4.3.6001 | Available Now | | DRAGEN CNV Baseline Builder v3.4.5, v3.4.6, v3.5.7, v3.6.3 | DRAGEN Baseline Builder v4.3.6001 | Available Now | | DRAGEN Covid Lineage - All versions | DRAGEN Microbial Amplicon v1.1.0 | Available Now | | DRAGEN Enrichment v3.4.5, v3.5.7, v3.6.3, v3.7.5, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.1.23 | DRAGEN Enrichment v4.4.4 | Available now | | DRAGEN FASTQ Toolkit v1.0.0, v1.1.0, v1.2.0, v1.3.1 | New app to be developed | 2026 | | DRAGEN FASTQC + MultiQC v3.6.3, v3.9.5 | DRAGEN Germline v4.4.4 (Map/Align only provides the same functionality as this app) | Available now | | DRAGEN Germline v3.3.7, v3.4.5, v3.5.7, v3.6.3, v3.7.5, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.1.23 | DRAGEN Germline v4.4.4 | Available now | | DRAGEN Germline v4.3.7 | DRAGEN Germline v4.3.6001 | Available Now | | DRAGEN Germline All Callers v3.9.5 | DRAGEN Germline v4.4.4 | Available now | | DRAGEN Germline for Pop Gen v3.7.8 | DRAGEN Germline v4.4.4 | Available now | | DRAGEN Imputation v4.0.3 | DRAGEN Imputation v4.3.6001 | Available now | | DRAGEN Joint Genotyping v3.2.8, v3.3.7, v3.4.5, v3.4.12, v3.5.7, v3.6.3, v3.7.5, v3.9.5, v3.10.4, v4.3.7 | DRAGEN Joint Genotyping v4.3.6001 | Available now | | DRAGEN Metagenomics Pipeline v3.5.8, v3.5.9, v3.5.10, v3.5.11, v3.5.12, v3.5.13 | DRAGEN 16s Plus v1.0.0, DRAGEN Metagenomics v3.7.0 | Both apps available now | | DRAGEN Microbial Amplicon v1.0.0, v1.1.0 | No transition required - not impacted by F2 change | Available Now | | DRAGEN PopGen v3.10.4, v3.10.5 | DRAGEN PopGen v4.3.6 | Available now | | DRAGEN Reference Builder v3.2.8, v3.3.7, v3.4.5, v3.5.7, v3.6.3, v3.7.5, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.1.23 | DRAGEN Reference Builder v4.4.4 | Available now | | DRAGEN RNA v3.3.7, v3.4.5, v3.5.7, v3.6.3, v3.7.5, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.0.4, v4.1.23, v4.2.4, v4.2.7, v4.3.6, v4.3.7, v4.3.13 | DRAGEN RNA v4.4.4 | Available now | | DRAGEN scATAC v4.0.3, v4.2.4 | End of life, no replacement planned | N/A | | DRAGEN scRNA v3.7.4, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.2.4, v4.3.6, v4.4.2 | DRAGEN scRNA v4.4.6000 | Available now | | DRAGEN Somatic v3.2.8, v3.3.7, v3.4.5, v3.5.7, v3.6.3, v3.7.5, v3.8.4, v3.9.5, v3.10.4, v4.0.3, v4.1.23 | DRAGEN Somatic v4.4.4 | Available now | | Reference Builder (Instrument) on BSSH v1.0.0, v1.1.0, v1.2.0, v2.0.0, v3.0.0 | DRAGEN Reference Builder v4.4.6 | Available now | | Nanostring GeoMx NGS Pipeline v2.0.21 |

Nanostring GeoMx NGS Pipeline NextSeq 1000/2000 local workflow (on instrument only)
Nanostring GeoMx NGS Pipeline (standalone application, non-DRAGEN, provided by Bruker)

| Available Now | Information on TSO 500 and TSO 500 ctDNA F2 transition may be found in the [TSO 500 Software User Guide](https://help.tso500software.illumina.com/f2-support-on-ica). ## BCL Convert BSSH Workflow End of Life Roadmap Several versions of BCL Convert on BSSH will be obsolesced on December 20, 2025. These apps are not impacted by F instance migration but are being obsolesced as part of an ongoing effort to streamline our software products and portfolio. **Recommended transition paths for BCL Convert EOL versions** | Current Version | New F2 Patched Version | Availability | | ----------------------------------------------------------------------------------------------------------------------------- | ---------------------- | ------------- | |

BCL Convert v1.2.0, v1.2.1, v1.3.0, v2.0.0, v2.1.0, v2.2.0, v2.3.0, v2.4.0
BCL EA v1.1.0
BCL for ICA Beta v1.0.0

| BCL v2.7.0 | Available now | ## DRAGEN BSSH Run Planning Workflow End of Life Notifications The following run planning workflow versions have been scheduled for end of life related to F instance transition and ongoing efforts to streamline our software products and portfolio. **New DRAGEN Cloud Analysis Auto-Launch Pipelines F2-Compatible Versions** | Instrument(s) | Pipeline Name | Current Version | New Version | Availability (2025) | | ---------------------------------------------------------------- | ----------------------- | --------------- | ----------- | ------------------- | | NovaSeqX | DRAGEN Enrichment | 4.3.16 | 4.3.16-1 | Available Now | |

NextSeq1000/2000, NextSeq 500/550
MiniSeq, MiSeq

| DRAGEN Enrichment | 4.2.7 | 4.2.7-1 | Available Now | | NovaSeqX | DRAGEN Germline | 4.3.16 | 4.3.16-1 | Available Now | | NextSeq1000/2000 | DRAGEN Germline | 4.2.7 | 4.2.7-1 | Available Now | | NovaSeqX | DRAGEN Methylation | 4.3.16 | 4.3.16-1 | Available Now | | NovaSeqX | DRAGEN RNA | 4.3.16 | 4.3.16-1 | Available Now | | NextSeq1000/2000 | DRAGEN RNA | 4.2.7 | 4.2.7-1 | Available Now | | NovaSeqX | DRAGEN Somatic | 4.3.16 | 4.3.16-1 | Available Now | |

NextSeq1000/2000, NextSeq 500/550
iSeq, MiniSeq, MiSeq

| DRAGEN Amplicon | 4.3.13 | 4.3.13-1 | Available Now | | NextSeq 500/550, iSeq, MiniSeq, MiSeq | DRAGEN Amplicon for ICA | 4.3.13 | 4.3.13-1 | Available Now | **Recommended Transition Paths for all other DRAGEN Cloud Analysis Auto-Launch Pipelines using F1-instances** | Instrument | Pipeline Name | Current Version(s) | New Version | Availability (2025) | | ---------------------------------------------- | -------------------- | ---------------------------------- | ------------------------------------------------ | ------------------- | | NovaSeqX | DRAGEN Enrichment | 4.1.5, 4.1.7, 4.1.23, 4.3.13 | 4.3.16-1 | Available Now | | NovaSeqX | DRAGEN Germline | 4.1.5, 4.1.7, 4.1.23, 4.3.13 | 4.3.16-1 | Available Now | | NovaSeqX | DRAGEN Methylation | 4.1.23, 4.3.13 | 4.3.16-1 | Available Now | | NovaSeqX | DRAGEN RNA | 4.1.5, 4.1.7, 4.1.23, 4.3.13 | 4.3.16-1 | Available Now | | NovaSeqX | DRAGEN Somatic | 4.1.23, 4.3.13 | 4.3.16-1 | Available Now | |

NovaSeqX
NovaSeq 6000

| Heme WGS | 1.0.0 | 4.4.4 | Available now | |

NovaSeqX
NovaSeq 6000

| DRAGEN scRNA | 4.4.2 | 4.4.6 | Available Now | | NextSeq 1000/2000 | DRAGEN Amplicon | 3.8.4, 3.10.4, 4.2.7 | 4.3.13-1 | Available Now | | NextSeq 1000/2000 | DRAGEN Enrichment | 3.5.6, 3.5.8, 3.7.4, 3.8.4, 3.10.4 | 4.2.7-1 | Available Now | | NextSeq 1000/2000 | DRAGEN Germline | 3.5.6, 3.5.8, 3.7.4, 3.8.4, 3.10.4 | 4.2.7-1 | Available Now | | NextSeq 1000/2000 | DRAGEN RNA | 3.5.6, 3.5.8, 3.7.4, 3.8.4, 3.10.4 | 4.2.7-1 | Available Now | | NextSeq 1000/2000 | DRAGEN scRNA | 3.7.4, 3.8.4, 3.10.4, 4.2.7, 4.4.2 | 4.4.6 | Available Now | | NextSeq 1000/2000 | Nanostring GeoMx NGS | 2.0.21 | Nanostring GeoMx NGS 4.2.11 Local Instrument App | Available now | | NextSeq 1000/2000 | COVIDSeq Test | 1.3.0-RUO | DRAGEN Microbial Amplicon 1.1.0 BSSH Cloud App | Available now | | MiSeq i100 | LibraryQC | 4.3.13 | 4.4.6 | Available Now | | MiSeq i100 | Small WGS | 4.3.13 | 4.4.6 | Available Now | | MiSeq i100 | DME+ | 4.3.13 | 4.4.6 | Available Now | |

NextSeq 500/550
iSeq, MiniSeq, MiSeq

| Amplicon for ICA | 4.2.7 | 4.3.13-1 | Available Now | **Recommended Transition Paths for BCL Convert Cloud Analysis Auto-Launch Pipelines** | Instrument | Pipeline Name | Current Version(s) | New Version | Availability (2025) | | --------------------------------------- | ------------------- | ---------------------------------- | ----------- | ------------------- | | NextSeq1000/2000 | BCL Convert | 3.5.6, 3.5.8, 3.7.4, 3.8.4, 3.10.4 | 4.3.13 | Available now | | NovaSeq 6000 | BCL Convert | 3.8.4 | 4.3.13 | Available now | |

NextSeq1000/2000
NovaSeq 6000

| BCL Convert for ICA | 3.9.5 | 4.1.5 | Available now | **DRAGEN cloud analysis auto-launch apps *****not***** impacted by either infrastructure change – No change required by customer** | Pipeline Name | Current Version(s) | Instrument(s) | | ---------------------- | --------------------------------------------------- | ------------------------------------------------ | | BCL Convert | 3.10.9, 4.1.5, 4.1.7, 4.1.23, 4.2.7, 4.3.13, 4.3.16 | All platforms | | BCL Convert for ICA | 4.1.5 | NextSeq 1000/2000, NextSeq 500/550, NovaSeq 6000 | | Germline Enrichment | 4.4.4 | NextSeq 1000/2000, NovaSeq 6000, NovaSeqX | | Heme WGS | 4.4.4 | NovaSeq 6000, NovaSeqX | | Protein Quantification | 1.8.33, 2.0.0, 2.1.0, 2.2.2 | NovaSeq 6000, NovaSeqX | | Spatial Transcriptome | 1.0.0 | NovaSeq 6000, NovaSeqX | ## Additional DRAGEN BSSH/ICA End of Life Notifications The following apps have been scheduled for end of life unrelated to F-instance transition. | Applications to be made Obsolete | Alternative Application | Date of Last Support | | -------------------------------------------- | ----------------------------------------- | -------------------- | | DRAGEN Covid Lineage - All versions | DRAGEN Microbial Amplicon v1.1.0 | December 1, 2025 | | DRAGEN Targeted Microbial - All versions | DRAGEN Microbial Amplicon v1.1.0 | December 1, 2025 | | DRAGEN ICLR WGS v1.1, v2.0.6 - BSSH App | Constellation Mapped Reads (planned 2026) | December 1, 2025 | | DRAGEN ICLR WGS v2.0.6 - ICA Pipeline | Constellation Mapped Reads (planned 2026) | December 1, 2025 | | DRAGEN ICLR Enrichment v2.0.6 - BSSH App | Constellation Mapped Reads (planned 2026) | December 1, 2025 | | DRAGEN ICLR Enrichment v2.0.6 - ICA Pipeline | Constellation Mapped Reads (planned 2026) | December 1, 2025 |