CosmosID Plugin for Qiagen CLC

Detect microbes in metagenomic samples with confidence

Explore your metagenomic samples with CosmosID and QIAGEN Bioinformatics. CosmosID gives you fast, accurate and comprehensive analyses of unassembled next generation sequencing reads. With the use of our curated genome databases and unrivalled sensitivity and specificity (>95%, and >99% respectively) we are unmatched in our ability to detect microorganisms in metagenomic samples.

Deeper insight through expert curated reference data

CosmosID identifies bacteria, viruses, fungi, and protists, as well as, antibiotic resistance and virulence factors in a whole genome shotgun metagenomic sample. It is able to discriminate pathogens and commensals from their ‘near neighbors’ using statistical and computational methods, with no prior assumptions as to what is present in the sample.


CosmosID uses raw, unassembled reads as input and matches the sequence against GenBook®, our expertly curated reference database. GenBook® is derived from private and public databases of assembled genomes and constitutes hundreds of millions of marker sequences representing both coding and non-coding sequences that are shared or uniquely identified across taxonomic or phylogenetic levels.

Ease of use

CosmosID installs into CLC Genomics Workbench. Explore your metagenomic data through a tried and trusted interface and tap into the deep NGS toolbox included in QIAGEN’s bioinformatics solution for microbial genomics.


We provide:

  • Rapid screening of pathogens
  • Bioinformatics, statistical, and comparative analyses
  • Visualization including heat maps and principal component analysis (PCA)
  • Batch processing
  • Antibiotic resistance and virulence factors
  • Bacteria, virus, parasite, fungi and antibiotic resistance databases



The plugin is fully compatible with the Microbial Genomics Pro SuiteCLC Genomics Workbench*, and Biomedical Genomics Workbench*

* The plugin requires an up to date version of the CLC Microbial Genomics Module to be installed.