Find me on bluesky: https://nitter.gq/t.co/Eg7xBH3aFu
Paris, France
Joined May 2019
- Tweets156
- Following416
- Followers192
- Likes367
Chloé Baum retweeted
New year, new assemblies!
I'm excited to announce Autocycler, my new tool for consensus assembly of long-read bacterial genomes!
It's the successor to Trycycler, designed to be faster and less reliant on user intervention.
Check it out: github.com/rrwick/Autocycler…
(1/5)
Chloé Baum retweeted
I finally got around to testing HERRO (github.com/lbcb-sci/herro), the new @nanopore read correction algorithm which takes simplex ONT reads to PacBio-HiFi-level accuracy.
I was impressed! Findings are on my blog in a two-part post:
rrwick.github.io/2024/07/26/…
rrwick.github.io/2024/07/31/…
Chloé Baum retweeted
A slide is worth a thousand words. At #ASMicrobe, @rrwick shared a fantastic presentation 'In Pursuit of Perfection, bacterial genome assembly from 2016 to today', including this recent Klebsiella isolate genome assembly of 99.99995% identity (Q63.0) using @nanopore data alone
Chloé Baum retweeted
Fantastic and entertaining presentation from Marc Monot @BiomicsPasteur about their @nanopore workflow! Got some really good ideas! #C4LGenomics
Chloé Baum retweeted
I am looking for a highly motivated PhD student to join my team to work on the broad field of microbial epigenomics. Please RT!
abg.asso.fr/en/candidatOffre…
Chloé Baum retweeted
The @seqlab Genoscope @CEA_Jacob_ is looking for a highly motivated Ph.D. candidate to work in microbial epigenomics (bioinfo + wet lab).
The funding is readily available and start date is envisaged to be around Sept/Oct 2024.
abg.asso.fr/en/candidatOffre…
Chloé Baum retweeted
After some different iterations, this true thumb drive DNA sequencer is getting scheduled into production ("MinION MkII" I think its offical moniker). The form factor is ...small. The chemistry is "standard ONT". Metagenomics/infectious agent identification anywhere, fast!
SmidgION, capable of generating more sequence data in a few days than existed in entire world at the turn of the century, resting on my pinkie
#nanoporeconf
Chloé Baum retweeted
Spectacular talk by @ClarksysCorner @UniMelb demonstrating how "@nanopore sequencing 🧬can successfully identify cell types using only #longread sequencing 💻" & scRNA-seq identifies isoform trajectories in #brain development🧠" #nanoporeconf
Chloé Baum retweeted
The announcement of v5 models already happened yesterday: transformer models (same as ChatGPT) with sup-v5 now getting simplex Q25-26.0. Already released in dorado.
Chloé Baum retweeted
Very excited about the native RNA sequencing session starting now at LC24 #nanoporeconf
Chloé Baum retweeted
Closeup of a @nanopore channel sequencing DNA.
(DallE insists on double helix entering the pores)
Chloé Baum retweeted
Read how #nanopore sequencing was used to smash the record for the largest animal #genome ever assembled. The Australian lungfish genome is 43 billion base pairs long — 14x larger than the human genome & 30% larger than that of the previous record! bit.ly/3TNxJz8 #PAG31
Chloé Baum retweeted
@institutpasteur 🤩
There is no other place where you can do amazing science and share a raclette for lunch at the canteen 🧀❤️
Chloé Baum retweeted
Direct RNA sequencing update!
We are pleased to announce that RNA004 is moving into open Early Access.
RNA004 provides higher outputs and accuracy compared to the previous version RNA002.
Learn more: bit.ly/40KRtVI 1/9
Chloé Baum retweeted
20 years of genomics! How many can you identify? #fcgz @ETH_en @UZH_Science (not complete, we are still looking through all our drawers)
Chloé Baum retweeted
New blog post:
rrwick.github.io/2023/10/24/…
I revisit the question of ONT-only accuracy for bacterial genomes, and things have improved a lot since I last looked at this about six months ago!
Chloé Baum retweeted
Here is the slightly cheesy montage for the great #nanoporeconf for 2023 - and, with a reminder of my conflict of interest - I am a longestablished paid consultant for Oxford Nanopore and a shareholder - here are my thoughts on the conference.
It’s been less than 24 hours since London Calling closed it’s doors for another year.
You can relive 3 days in just 3 minutes here: youtu.be/1ZUr6-hSDP0 #nanoporeconf
Chloé Baum retweeted
Huge dorado release 🎉
- 1.4x simplex perf HAC/SUP on A100
- 5khz v4.2 models
- All context 5mC, 6mA models
- Significantly faster duplex calling
- Duplex pairing handled automatically
- BAM output
- Aligned output via minimap2
#nanoporeconf
github.com/nanoporetech/dora…
