Georgia Kapatai

Senior Bioinformatician @MicrobioticaLtd
PhD in Molecular Microbiology @unibirmingham

[Bede Constantinides @beconsta]

Preprint: How best to remove human reads from microbial FASTQs? Our tool Hostile removed >99.6% of human reads while retaining >99.997% and 100% of simulated reads in bacterial and mycobacterial metagenomes
https://t.co/3GNzCSzGoT

[Zamin Iqbal @ZaminIqbal]

Fantastic work here from Karel. Using phylogenetic compression, he can compress 661k bacterial genomes into 20Gb (its >800Gb with gzip alone), and using the associated search pipeline, you can minimap align to it on your laptop.

[Simon Harris @DrSimonHarris]

MAximum Parsimonious Likelihood Estimation (MAPLE) from @Nicola_De_Maio and @EBIgoldman looks like a big step forward for maximum likelihood phylogenetics of closely related genomes. Looking forward to seeing how it scales outside of viruses. Impressive work!

[Sujai Kumar 🐢 @[email protected] @sujaik]

If you've ever wondered EXACTLY what is in @NCBI nt and nr (I certainly have!)

From https://t.co/22JYTjPjJo and https://t.co/72whvhjXm8 (cued to the right spots in the video)

#Bioinformatics #Genomics

[Titus Brown @ctitusbrown]

https://t.co/6aq6Klvq6O - gos, declarative genomics visualization in Python - looks awesome. Like, really awesome.

[Titus Brown @ctitusbrown]

Blog post: "snakemake for doing bioinformatics - a beginner's guide (part 2)". https://t.co/QusSIzpBcm

[Segata Lab @cibiocm]

"The person-to-person transmission landscape of the gut and oral microbiomes". Our work on microbiome stransmission published today open-access in @Nature! Fantastic work @MireiaVallesc, the whole @cibiocm group @CIBIO_UniTrento and all the collaborators! https://t.co/EB4TFlIDIh

[Huiluo Cao 曹慧荦 @hlcao]

What the Phage: a scalable workflow for the identification and analysis of phage sequences | GigaScience | Oxford Academic https://t.co/Z0ZKW29o5N

[Mick W@tson ↙️ @BioMickWatson]

Snakemake is amazing and you should all try it!

[Kate Baker @ksbakes]

Why did one AMR plasmid disseminate globally and one die out? Find out inside this awesome work https://t.co/2V2q3ZkN5d led by @MalakaDeS with @Jaws_Stenhouse @GraceBlackwell @RJBengtsson @ClaireJenkins2 @JPJHall 1/8

[Andrew Page @andrewjpage.bsky.social @andrewjpage]

SaffronTree is bioinformatics software which allows you to take reads or contigs and quickly build a phylogenetic tree from them. It falls under the category of crazy ideas that turn out to be useful.
https://t.co/gtW5F0RLuG

[Ryan Wick @rrwick]

I recently wondered: how well would @nanopore reads assemble in a short-read assembler? I.e. can ONT reads pass as Illumina reads in a de Bruijn graph assembly algorithm? Here are the results!
1/8

[Oliver Jumpertz @oliverjumpertz]

GitHub hosts more than 200.000.000 repositories.

But only a fraction of them are valuable resources for specific niches.

Here are 10 of my favorites repositories that help you grow as a software developer:

[George Bouras @GB13Faithless]

I have created pharokka, a dedicated fast phage annotation tool inspired by prokka. Pharokka is designed for users who want one-line, rapid, standarised and scalable phage annotations, much like prokka for prokaryotes. https://t.co/xIN2VClUeb

[Carmen Sheppard 🦠 @CarmenLSheppard]

Bioinformatics post (2x available) at UKHSA in reference microbiology/bacterial genomics. just advertised. Please share to anyone who might be interested. https://t.co/O4KpN3SAOU

[Simon Harris @DrSimonHarris]

If you’re interested in making bioinformatics fast and scalable I’d hugely recommend this position with John who is one of the finest people I’ve been fortunate enough to work with.

[Georgia Kapatai @gkapatai]

@LaurenCowley4 Happy birthday!! 🎉🎂🎈

[Georgia Kapatai @gkapatai]

@AvivaUK what is your policy about driving after local anaesthesia? That is topical injection of an anaesthetic in a localised area. Am I still insured to drive after the procedure?

[Dr. Rebecca Gladstone @Becctococcus]

Help us data-geeks out with a RT?!

[Todd J Treangen @traingene]

@ZaminIqbal Maybe this one? https://t.co/fLeViqQ8MR