Released today: ~1.5 Tbp of ONT metagenomic sequencing from compost. Assembly, MAGs, and downstream analysis are available to play with
epi2me.nanoporetech.com/compost_mgx_...
Overview We are pleased to release a metagenomic dataset from deep sequencing of a mature compost…
Our guide for best practices in metagenomic assembly and binning of @nanoporetech.com data, highlighting some exciting recently developed tools for high accuracy long reads
Come to ONT's industry event at ASM to hear about two exciting new tools from @jimshaw.bsky.social! SNPmers (polymorphic kmers) are leveraged for impressive performance in both myloasm (metagenomic assembly) and savont (16S ASVs). Registration link 👇
An ONT webinar where I discuss wet and dry lab methods for environmental metagenomics, as well as analysis of 1.5 Tb (!!) of metagenomic sequencing from compost. Featuring the nanoMDBG assembler, strain-dependent AMR profiles, and invertons:
www.youtube.com/watch?v=OZ4P...
ONT has a temporary bioinformatics position (8 months) open while I'm on maternity leave. Focus will be on microbial genomics but with opportunities to work on projects across the breadth of genomics!
ejnh.fa.em2.oraclecloud.com/hcmUI/Candid...
We are looking for an individual with expertise in bioinformatics and data analysis, specializing in microbial genomics and metagenomics, to join our Applications team as an Applications Bioinformatic...
Note that I released a new version of metaMDBG (v1.4) last week focusing on scalability. You can now process such dataset in 6 days and 130 GB of memory
Rapid diagnosis of common, undetected, and uncultivable bloodstream infections from positive blood cultures using Oxford Nanopore sequencing: a metagenomic pipeline analysis - The Lancet Microbe www.thelancet.com/journals/lan...
#microsky
NCBI's Taxonomy changes over time. We built Taxonomy Time Machine to track these changes:
🕰️ app: taxonomy.onecodex.com
📄 pre-print: www.biorxiv.org/content/10.1...
These findings show that metagenomic sequencing has the potential to rapidly and comprehensively
detect pathogens and AMR in bloodstream infections. Integration into clinical practice
could help to cl...
Released today: ~1.5 Tbp of ONT metagenomic sequencing from compost. Assembly, MAGs, and downstream analysis are available to play with
epi2me.nanoporetech.com/compost_mgx_...
For anyone doing ONT Microbial Genomics, please take 1 minute (less?) to tell us which assembly metrics you care most about when evaluating whether an assembly is "good".
We are doing a benchmark of different QC tools (barcode/adapter trimming and QC filtering).
microbial-qc-survey.streamlit.app
Gaëtan Benoit
Overview We are pleased to release a metagenomic dataset from deep sequencing of a mature compost…
Check out our new Apps Note on metagenomic assembly of the Zymo fecal reference with nanopore sequencing and metaMDBG. Almost 200 Gb of metagenomic sequence data from a single PromethION flowcell, yeilding hundreds of high-quality metagenome assembled genomes: nanoporetech.com/resource-cen...
Join Jim Shaw at #ASMicrobe to uncover how to unlock high-resolution, strain-level microbiome insights. Learn how this is could be crucial to helping deliver more precise diagnostics and treatment in the future. https://bit.ly/4v4XuKE
In this application note, we demonstrate the
capabilities of Oxford Nanopore metagenomics by
sequencing and analysing the well-characterised
ZymoBIOMICS Fecal Reference.
