We’ve made major updates to our library for fetching, analyzing, and visualizing your One Codex data in a Jupyter notebook. In this post we walk you through a handful of real-world examples of what you can do with these powerful new tools.
Announcing SMS-seq: The world’s first protocol for ultra-portable microbial sequencing data analysis and taxonomic identification.
We heard you! One Codex’s most-requested feature is here. You can now upload your paired-end sequencing data straight from your web browser, and get started with your microbiome analysis faster than ever.
Identifying specific strains and mixtures of strains in complex metagenomic samples is a key challenge in epidemiology, environmental microbiology, and live biotherapeutics development (LBPs). We’ve long been working on this problem and are excited to announce that our in-house strain-calling pipeline recently achieved the highest overall score in the precisionFDA CFSAN Pathogen Detection Challenge. We’re still continuing to hone and test several approaches, but are excited to see that each performed extremely well across the 25+ submissions:
Today at the Advances in Genome Biology & Technology (AGBT) conference, we are excited to unveil the largest searchable database of microbial genomes. Curated from its larger collection of hundreds of thousands of genomes, the latest One Codex Database includes >80,000 genomes and provides unprecedented sensitivity and specificity for metagenomic applications. The latest One Codex Database enables: Highly sensitive identification of microbes in complex samples Precise quantification of microbial abundances from whole genome sequencing (WGS) data Community-wide characterization of complex microbial samples, including the human microbiome Spanning the tree of life Our latest release includes over 80,000 genomes, representing more than 43,000 distinct species and 69,000 strains across all microbial domains.