Matthew Clark

@StevenSalzberg1 @simonmaechling I only read "following" where I get a feed curated by me, of sources such as yourself, that I value reading. That largely frees you from the algorithm's dross. I'll miss your input if you leave, try ignoring the "for you" stream if you haven't tried already.

@simonmaechling it keeps getting worse. I think the only solution is to leave Twitter/X entirely and have nothing to do with it. I'll be leaving within the next few days

X has become emotionally toxic. I’m here for the science. Instead all I see is pseudoscience, rage, and engagement bait. Anyone else feel this?

@Dowellenough @JohnFingleton1 Yes and it caused a tsunami. BTW a 3.3 is like a lorry driving past your house. UK nuclear power stations are designed for at least a 7.1 (1000x stronger). My point is scale matters e.g. a grain of rice or anvil dropping on you.

@matholomoo @JohnFingleton1 … the distance of the 9.1 quake from Fukisima? Appreciate the input but I think your response is missing my point (entirely?).

Luckily the UK isn’t *subject to earthquakes* according to the supporters of the latest renaissance of the nuclear power dream of energy so cheap we won’t have to meter it*… ehh @JohnFingleton1 🥺

Happy to report that our @richardmleggett MARTi (Metagenome Analysis in Real Time) paper is published. We find it a useful front and backend for metagenomics (HPC or laptop). For nanopore it can pipe new reads into analysis and give live graphic results genome.cshlp.org/content/early/…

@ACC_IanDS @nathankw @BTP @Emmabarnett @BBCr4today @BBCMoreOrLess The BTP spokesman was clearly suggesting that if there was 10 hours of footage it took 10 hours to watch - but it takes minutes using binomial search. To your point if there are no cameras capturing the bike area (or really badly) then that can also be established quickly.

@nathankw @BTP @Emmabarnett @BBCr4today @BBCMoreOrLess Too simplistic… assumes the CCTV has the resolution and the angle to pick out a specific bike. It often doesn’t. And in this particular case, the bike wasn’t stolen it was an attempted theft. We’re working to develop AI searching for suspicious activity at bike stands.

Excruciating interview with @BTP and @Emmabarnett on @BBCr4today about not having the time to look at bike theft CCTV. Can someone tell them about binary search! A job for @BBCMoreOrLess perhaps?

New BBSRC Transformative Research Technologies grant funded postdoc, combining CRISPR and nanopore sequencing. Based @NHM_Science ideal for a super molecular biologist, with coI @richardmleggett bringing additional nanopore bioinformatics expertise. Apply jobs.nhm.ac.uk/Job/JobDetail?…

@malcolmacaulay @royalsociety @LEGO_Group @nanopore @JonHaleBio @JamesHuttonInst @UoDLifeSciences Nice. I assume it's modified from @brickopore ?

One of the coolest exhibits at the @royalsociety Summer School! @LEGO_Group model of @nanopore sequencing! Well done @JonHaleBio #partnershipgrants

@The__Taybor Or Geordie, but maybe that's more t-shirt than shorts. Hmm. Maybe he's a postie, they're strong on all weather shorts.

@matholomoo No had sensible boots on and a waterproof. Just the shorts. It must have been -12 in the windchill. No he wasn’t Scottish.

Long winter walk today above the clouds - some photos. There was a guy up there in shorts.

@alperakay_ I get £8,604.00 for one of the P2 solo starter pack options (below, note doesn't have to be RNA flowcells DNA also an option).

This means for most labs in UK, P2 Solo will have to be costed separately in the grant applications. Previous starter pack was less £10k. Now over £20k.

New publication on the HPC resources shared between @niabscience @JamesHuttonInst @NHM_Science @KewScience @RBGE_Science @SRUC @univofstandrews which is more efficient and aids collaboration - funded twice by @BBSRC ALERT

NEW PAPER: UKCropDiversity-HPC: A collaborative high-performance computing resource approach for sustainable agriculture and biodiversity conservation. Read open access paper ➡️ nph.onlinelibrary.wiley.com/doi/full/10.10…

Very happy to see @annaliisalaine's & my article out in @ScienceMagazine today! We reveal that the more a plant species invests in defense, the less potential it has for growth. All made possible by lots of public data & amazing open science contributions! science.org/doi/10.1126/sc…

KRILLGUARD is a @NERCscience funded project that uses genome sequencing of krill and comparisons with historic specimens at the Museum to investigate the impact of climate change on this keystone species. @matholomoo with @BAS_News and Uni of East Anglia nhm.ac.uk/discover/news/…

The code can be found here github.com/o-william-whit…, github.com/o-william-whit…, github.com/o-william-whit… which is ready to go with all dependencies managed by Snakemake. Pease do try it out on your own data and let me know how it goes!

A special thank you to everyone who attended the @BioGenEurope hackathon in Leiden, testing the pipeline to help their efforts to barcode over 30,000 museum collections.

We show that the toolkit can recover mitochondrial and ribosomal genes from poorly preserved museum specimens of the gastropod family Solariellidae.

The pipelines perform the batch assembly, annotation and phylogenetic analysis of mitochondrial genomes and nuclear ribosomal genes in a robust and scalable way using snakemake.

Museum collections are a vast repository of historical biological data that remains largely untapped as genetic resources due to challenges associated with DNA degradation and contamination. Our pipelines provide a method to sequence mitochondrial and ribosomal genes at scale.