> For the complete documentation index, see [llms.txt](https://help.connected.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.connected.illumina.com/dragen-clinical-research-apps/readme/dragen-solid-wgs-tn-pipeline.md). # DRAGEN Solid WGS Tumor Normal Pipeline ## Overview DRAGEN Solid WGS Tumor Normal Pipeline, henceforth referred as the Solid WGS TN Pipeline, is a comprehensive and unbiased whole genome sequencing solution for detection of all types of mutation in matched tumor and normal samples. It can be applied to detect clinically actionable mutations for cancer spanning a wide range of genomic events, e.g., structural variants (SV), copy number alterations (CNA), small variants (SNV/insertion/deletion/delins). The Solid WGS TN pipeline includes a DNA-only workflow designed to analyze whole genome sequencing data generated on supported instruments. It may be run as a local off-instrument solution installable on a DRAGEN server or accessible through the Platform Core cloud environment. The Solid WGS TN pipeline is for Research Use Only (RUO). ![Solid Tumor Normal Pipeline Workflow](https://2414276024-files.gitbook.io/~/files/v0/b/gitbook-x-prod.appspot.com/o/spaces%2FjdZwGT2DsEhB6cr9Abe8%2Fuploads%2Fgit-blob-903afceea1285c2702857e1949773b03c24d158d%2Ftn-pipeline-workflow.png?alt=media) ## Features * Superb performance based on the DRAGEN BioIT platform Release 4.4.4 * Supports starting the analysis from FASTQ (.gz or .ora format), BAM or CRAM as inputs * Flexible custom configurable options on top of well established DRAGEN recipes for Solid WGS TN analysis. * Available on local DRAGEN servers and Illumina BioInsight Platform Core ## Supported Library Prep Kits (LPKs) No specific requirements on LPKs since the pipeline does not support starting from BCL in the curent release. ## Supported Sequencing Instruments No specific requirements on instruments since the pipeline does not support starting from BCL in the curent release. --- # Agent Instructions This documentation is published with GitBook. GitBook is the documentation platform designed so that both humans and AI agents can read, navigate, and reason over technical content effectively. Learn more at gitbook.com. ## Querying This Documentation If you need additional information that is not directly available in this page, you can query the documentation by asking a question. Perform an HTTP GET request on the following URL with the `ask` and `goal` query parameters: ``` GET https://help.connected.illumina.com/dragen-clinical-research-apps/readme/dragen-solid-wgs-tn-pipeline.md?ask=&goal= ``` `ask` is the immediate question: it should be specific, self-contained, and written in natural language. `goal` is what the user is ultimately trying to achieve, the reason they need the answer. Sharing it helps GitBook give you a better, more relevant answer. A goal is most helpful when it describes the outcome the user wants rather than restating the question. For example, with `ask=how do I create an API token`, a goal like `automate deployments from our CI pipeline` lets GitBook tailor the answer to that use case. The response will contain a direct answer to the question and relevant excerpts and sources from the documentation. Use this mechanism when the answer is not explicitly present in the current page, you need clarification or additional context, or you want to retrieve related documentation sections.