The One Codex Blog

The One Codex Database is the most complete, all-in-one microbial genomics database available, and is now more comprehensive than ever! We’re very excited to announce that we’ve just released the latest update to our One Codex Database for shotgun metagenomics, now containing over 40% more curated genomes with 114,505 in total.

What does this mean for you? Your shotgun microbiome analyses are now more accurate than ever, and one analysis provides a complete picture of all of the bacteria, viruses, and fungi in your samples. The One Codex Database lets you quickly and easily characterize everything in your shotgun sequencing data in minutes instead of days.

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: