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QIAGEN CLC Genomics

Complete NGS and 'omics data analysis tools with flexible access, from a laptop to a local server to the cloud

Experience powerful NGS data analysis capabilities to scale your research

Rapidly identify the best biomarker and target candidates based on biological characteristics most relevant to your discovery study. Our powerful and high-quality tools are driven by over 20 million scientific findings and over 500,000 samples, to save you valuable time and resources while empowering your biomarker research by driving new discoveries.

Explore our NGS and ‘omics data analysis tools for:

  • NGS workflows 
  • Microbial genomics

  • Biomedical genomics
  • Enterprise genomics
  • Plugins and Modules
  • QIAGEN CLC Assembly Cell

QIAGEN CLC solutions for NGS and 'omics data analysis: Get the features that meet your needs

QIAGEN CLC Main Workbench:
For basic sequencing analysis
QIAGEN CLC Genomics Workbench: For advanced sequencing analysis
QIAGEN CLC Genomics Workbench Premium: Our full-featured solution
  • Primer design
  • Multiple sequence alignment tools
  • Phylogenic analysis tools
  • Sanger sequencing analysis 
  • Molecular cloning
  • Gene expression analysis
  • 3D molecular modeling
  • Support most sequence formats, including Vector NTI
  • Workflow editor
  • Whole genome alignment

Incudes all the features of the QIAGEN CLC Main Workbench, plus:

  • Supports de novo NGS assembly
  • Supports all organisms 
  • Resequencing analysis and variant calling
  • Long read analysis (PacBio, Oxford Nanopore)
  • RNA-seq (including miRNA and lncRNA), ChIPseq, DNA methylation
  • Biomedical genomics analyses 
  • Haplotype calling
  • QIAseq panel analysis workflows

Includes all the features of the QIAGEN CLC Genomics Workbench, plus:

  • Microbial typing
  • Antimicrobial resistance
  • Metagenomics characterization
  • Single Cell Analysis 
  • QIAGEN CLC Genome Finishing Module for small genomes
  • NGS-based MLST

QIAGEN CLC Enterprise Solutions: Multi-tenancy, with organization-wide and command line access

Scale your NGS: From single-user to enterprise-friendly data analysis, our NGS enterprise solutions for whole genome data analyses are scalable and support multiple users in an intuitive way.

Our QIAGEN CLC enterprise solutions include:

  • QIAGEN CLC Genomics Server
  • Speeds analysis
  • Available plugins
  • QIAGEN CLC Genomics Cloud Engine
  • QIAGEN CLC Genomics SaaS (Coming Soon)

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Any species, any platform, any workflow: The all-purpose power tool for NGS data analysis

• Ready-to-use and flexible workflows: Over a dozen pre-built workflows to accelerate analysis of your cancer and hereditary disease data. Build your own customized analysis workflows for a wide range of both DNA and RNA sequencing data

• Intuitive interface: Interactive visualization of your data linked to a best-in-class track viewer

• Visualize and share results with the built-in Genome Viewer

• Platform independent: Supports common sequencing platforms (Illumina, Ion Torrent, PacBio, Oxford Nanopore and GeneReader) and runs on most operating systems

• Enterprise ready: Support multiple users in an intuitive way, with high-throughput analysis and automation

Tools in the QIAGEN CLC Genomics portfolio:

NGS workflows

User-friendly bioinformatics software solutions enable a comprehensive analysis of your NGS data. QIAGEN CLC Main Workbench offers core workflows such as DNA and gene expression, primer design, molecular cloning, phylogenetic analyses and data management. QIAGEN CLC Genomics Workbench provides advanced workflows for de novo assembly of whole genomes and transcriptomes, resequencing analysis (WGS, WES and targeted panel support), variant calling, RNA-seq, ChIP-seq and DNA methylation (bisulfite sequencing analysis).

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Microbial genomics

Uncover critical correlations among microbiota, metagenome and host. Easily understand complex metagenomic data through tools and streamlined analysis workflows for gene finding, annotation, taxonomic and functional microbiome analysis. Our solutions for microbial genomics include tools and workflows for a broad range of bioinformatics needs for microbiome analysis, isolate characterization, functional metagenomics, pathogenicity, strain typing and resistance identification.

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Biomedical genomics

Empower your biomedical analyses with prebuilt workflows for human, mouse and rat genomics, including support for QIAseq UMI-based NGS library preparation kits and panels. Content includes hereditary disease workflows, oncology somatic mutation detection workflows for cancer FFPE or liquid biopsy (single sample or matched tumor-normal) samples, sensitive detection of SNPs, MNVs, indels, tandem repeats, structural variants, fusion genes and CNVs.

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Enterprise genomics

Grow and scale your NGS capabilities beyond the number of available desktops. Our enterprise NGS solution can be deployed on a local server that manages the submission of many jobs via its own queuing system or through submission of jobs to a third-party grid scheduler.  QIAGEN CLC Genomics Cloud Engine makes bioinformatics analysis scalable and accessible to anyone involved in the analysis of NGS data. It lets you build your workflows locally in the QIAGEN CLC Genomics Workbench and then deploy them on Amazon Web Services (AWS) in minutes.

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Plugins and Modules

With over 30 plugins and modules, these feature-rich extensions are seamlessly integrated and provide advanced tools and workflows to meet your specific analysis needs. Some of the most popular plugins include:

Explore the full list of available plugins:

QIAGEN CLC Assembly Cell

The command-line interface of QIAGEN CLC Assembly Cell offers key features to support your assembly projects. These include read mapping, de novo assembly, quality trimming and removal of duplicate reads, as well as further functionalities in scripts and other next-generation sequencing workflows. Run it on your desktop computer or on a large computer cluster. QIAGEN CLC Assembly Cell is accelerated through advanced algorithm implementations which make the software one of the fastest and most accurate packages for NGS data analysis on the market.

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Interested in QIAGEN CLC Genomics solutions?

Request a consultation with one of our bioinformatics specialists to discuss your specific research requirements.

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The photos on this page were taken prior to COVID-19.