iiinova — where your digital self keeps evolving

Reposted by Christine He

Michael Hall @mbhall88.bsky.social · 15/06/2026

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

microbial-qc-survey.streamlit.app

Microbial QC Survey

A standalone Streamlit app that collects community priority weights over fourassembly-QC metrics ...

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Christine He @christinehe.bsky.social · 29/05/2026

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 👇

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Reposted by Christine He

Gaëtan Benoit @gaetanbenoit.bsky.social · 11/05/2026

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

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Christine He @christinehe.bsky.social · 02/05/2026

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_...

epi2me.nanoporetech.com

Metagenomic Assembly Sheds Light on Microbial Diversity in Compost

Overview We are pleased to release a metagenomic dataset from deep sequencing of a mature compost…

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Christine He @christinehe.bsky.social · 27/08/2025

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...

ejnh.fa.em2.oraclecloud.com

Applications Bioinformatician (8 month temporary role)

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...

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Christine He @christinehe.bsky.social · 17/07/2025

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...

youtube.com

Exploring Oxford Nanopore sequencing methods for environmental samples

YouTube video by Oxford Nanopore Technologies

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Christine He @christinehe.bsky.social · 21/01/2025

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

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Reposted by Christine He

Austin Richardson @agdr.org · 13/12/2024

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...

A screenshot of a webpage titled "Taxonomy Time Machine" showing the taxonomic lineage and descendants of the Influenza A Virus

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