Henri van de Geest

Bioinformatician @ HudsonRiverBiotechnology, Netherlands
Believer of genetically edited plants for a better world.
Husband,2 daughters; Christian #KerkvoorNU

[Henri van de Geest @geesthc]

Snow outside, inside a nice treat! @PhilipsNL

[Henri van de Geest @geesthc]

@elonmusk @grok this information seems false to me. What so what do you think? Police reports says that the murderer has not been arrested before.

[Henri van de Geest @geesthc]

@SpaceBasedFox What are the odds that both satellites traveling with the same relative speed in the same direction? Otherwise it requires an insane short shutter speed to get a super fast flying object sharp in the photo. Or am I entirely wrong here?

[Henri van de Geest @geesthc]

What an era was this... We moved on, but hey, many, many warm memories with Canu!
https://t.co/PNKFNN9qxz
Goodbye.
Do not expect another release. This is it, folks. The sequencing technology has moved on and Canu is all but obsolete now.

[Henri van de Geest @geesthc]

@iiSeymour @JiazhiLiu391571 @nanopore Correct. With less smooting the plot is more close to 100.

[Henri van de Geest @geesthc]

Just tried the dorado v0.7.0 version, the basecalling quality gets a very nice jump! Not a minor increase, this is huge! (mode Q20 -> Q23) Any timeline prediction for minknow integration?
data: ~1kb PCR amplicon, plant, plot made with Giraffe
@nanopore @iiSeymour

[Chris Seymour @iiSeymour]

Huge set of software releases for @nanopore #DataAfterDark starting with dorado v0.7.0.

More accurate v5 simplex models for DNA, RNA and duplex, 4mC calling, q40 read correction, Poly(A) tail est for plasmids and transcripts with interrupted tails, plus more 🤯 #nanoporeconf

https://t.co/2A2BFSYSXw

[Chris Seymour @iiSeymour]

New blog: Transforming Basecalling in Genomic Sequencing by @samgd #nanoporeconf https://t.co/LmwVldaNqJ

[Henri van de Geest @geesthc]

@TJesse62 @nanopore Finally, I can agree on this being breaking news ;)

[Henri van de Geest @geesthc]

Shiny apples they have here! At Hudson River Biotechnology we are using ONT sequencing to detect our CRISPR based gene edits in many different crops. What about a better shelf life? Nanopore seq brings us further everyday! @HudsonRiverBio1 #nanoporeconf https://t.co/q9jNWQ4teb

[Chris Seymour @iiSeymour]

Now, @nanopore only approaches are producing the best t2t automated assemblies ever produced with 30 contigs and 5 scaffolds! 🤯🤯🤯🤯 #nanoporeconf

[Min Choi @minchoi]

This is wild.

OpenAI just dropped ChatGPT-4o and it will completely change the AI assistant game.

10 wild examples:

1. Visual assistant in real-time

[Henri van de Geest @geesthc]

@corinewashier @StormchaserNL Dat roze was voor onze ogen enkel rood. Op het oog zagen we geen andere kleuren dan dat.

[Henri van de Geest @geesthc]

#noorderlicht opeens heb je geluk, met het blote oog heel goed te zien. Het licht bewoog zelfs. Vanuit Duiven!

[Henri van de Geest @geesthc]

Looking forward to LC24, Train and Airbnb booked! #LC24 @nanopore

[Henri van de Geest @geesthc]

@drimran_farooq @PhDVoice @PhD_Genie Don't agree with RIP, but certainly it says something on reviewing/authors. Not a problem when people use AI, but sloppy to keep something like this in the publication.

[Dr. Imran Farooq @drimran_farooq]

R.I.P. scientific publishing and peer-review system.

https://t.co/Uzk24ps6Ro

#AcademicTwitter #academic #academia #researchers #research #phd @PhDVoice @PhD_Genie

[Henri van de Geest @geesthc]

This seems interesting...! https://t.co/YdmNbUCqM0

[Jerzy H. Czembor 2022 @CzemborH]

RT: Grain Club
👨‍🎓🧬🌾🔬🧩📈🧑‍🌾💚
Historic moment: @Europarl_EN votes FOR proposal @EU_Commission for the future regulation & application of new genomic techniques #NGT
#CRISPR
Good decision for #agriculture
#CRISPRforEurope #EUFarm2Fork
#Genomics #plantbreeding #FoodSecurity

[Henri van de Geest @geesthc]

@nanopore We have some indication this had to to with running the flongle at too low temperatures.. ~33 degrees instead of the target ~40 degrees. (not confirmed bij ONT yet) We had put on a fan for summer temperatures, left it on in winter assuming it cannot do any harm.

[Henri van de Geest @geesthc]

Anyone ever seen this before? our ~ 1kb amplicon library gives stunning long, and aborted by voltage reversal, reads: Last week 1/5 flongles gave this pattern with the same library, today 2/2 flongles with a new library have similar patterns: Too high loading maybe?
@nanopore