iiinova — where your digital self keeps evolving

Bede Constantinides @bede.im · 27/09/2026

Celebrated road cycling world champs with a mates race of ~20 riders in a double breakaway scenario. Podium secured for team Norway inc @nickdsandy.bsky.social 🇳🇴

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Bede Constantinides @bede.im · 01/09/2026

Reason #617 cyclists don't use cycle lanes

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Bede Constantinides @bede.im · 18/08/2026

As requested, Deacon 0.17.0 adds BINSEQ CBQ support. CBQ is a binary sequence format by @noamteyssier.bsky.social that’s tiny on disk, fast to decode, and supports Ns. With CBQ, Deacon can filter sequences at >5 Gbp/s on a laptop (faster than uncompressed FASTA) github.com/bede/deacon/...

Comparison of Deacon host depletion throughput for cbq, cba, fasta, fastq and fastq.gz for simulated viral reads, with varying thread counts.

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Bede Constantinides @bede.im · 08/08/2026

I get that airlines oversell flights, but should it not be illegal to pretend that check-in failed due to "technical issues" rather than running out of seats due to overselling? And then to advise checking in at airport when there's negligible chance of flying. Easyjet.

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Bede Constantinides @bede.im · 13/07/2026

Ever wanted to quickly check host content of DNA sequences? bede.im/sapiometer

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Bede Constantinides @bede.im · 25/06/2026

Air conditioning is not ventilation. Crisp and dry conditioned air feels fresh but often isn't. Beware of this sensory trickery.

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Bede Constantinides @bede.im · 11/06/2026

Fable refuses this prompt too

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Bede Constantinides @bede.im · 29/05/2026

"I'm sorry Dave, I'm afraid I can't …Summarise a document about genomic surveillance"

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Bede Constantinides @bede.im · 01/04/2026

With lab work done, sequencing and bioinformatics made up the final days of the @artic.network workshop in Ghana

RAMPART real-time sequencing run monitoring

Phylogenetic analysis of a mock outbreak

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Bede Constantinides @bede.im · 26/03/2026

The Viral Sequencing and Bioinformatics workshop in Accra, Ghana is underway! @artic.network

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Bede Constantinides @bede.im · 22/03/2026

This appears to have struck a nerve

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Bede Constantinides @bede.im · 21/03/2026

Also presta valves have fiddly removable valve cores. Even if not bent these will leak if loose. Can tighten with pliers if careful. PTFE tape on threads can help too. A drop of water will reveal a leak here.

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Bede Constantinides @bede.im · 21/03/2026

"Makes no sense for any road users". What about the owners of these six bicycles locked up on Thursday evening @maryoxford.bsky.social ? Are they not road users? Popular already and in spite of damage.

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Bede Constantinides @bede.im · 19/03/2026

Only took a week for a driver to smash into new bike racks opposite White Hart. Clearly popular though. Bigger bollard needed?

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Bede Constantinides @bede.im · 06/03/2026

Remarkably swift response from @anneliesedoddsmp.bsky.social and team – thank you

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Bede Constantinides @bede.im · 05/03/2026

Tip for hybrid Teams meetings: disable background noise suppression so that quiet voices aren't silenced

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Bede Constantinides @bede.im · 03/03/2026

Deacon can now run in the browser using WebAssembly. Sequence data never leaves your machine. It currently supports FASTA/Q filtering using indexes up to 1GB in size. Demo: bede.im/deacon

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Bede Constantinides @bede.im · 20/02/2026

TLDR: don't tell an agent that it's deity theshamblog.com/an-ai-agent-...

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Bede Constantinides @bede.im · 31/01/2026

How AI Impacts Skill Formation arxiv.org/abs/2601.20245 Studied by challenging mostly university-educated Python programmers to use async Python (Trio), so likely quite conceptually challenging. LLM users were barely faster but with a large deficit in skill acquisition. Ouch.

Graphs showing LLM-assisted coders performing an unfamiliar task slightly faster but with significantly poorer skill acquisition than unassisted coders

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Bede Constantinides @bede.im · 25/01/2026

The Somerset Levels are going under again levelslevels.uk

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Bede Constantinides @bede.im · 11/12/2025

This is Bam, shall I bring him in? Bites more than Sam.

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Bede Constantinides @bede.im · 09/12/2025

That favourite burger place of yours… ratings.food.gov.uk/business/269...

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Bede Constantinides @bede.im · 09/12/2025

Great to meet IRL! Thanks for your talk and chats with us in Birmingham too

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Bede Constantinides @bede.im · 07/12/2025

TIL Deacon decompresses fastq.gz 3x faster than GNU coreutils gzip/zcat. You can decompress, dehost and recompress fastq.gz using Deacon in less time than only decompressing using coreutils gzip/zcat or pigz.

console output showing gzip: 38s, pigz: 21s, deacon: 12s, deacon dehost and compress: 13s

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Bede Constantinides @bede.im · 15/09/2025

Front page of Hacker News 🫨 bsky.app/profile/bede...

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Bede Constantinides @bede.im · 05/09/2025

Claude's kryptonite: incredibly mundane biology questions

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Bede Constantinides @bede.im · 15/08/2025

Deacon 0.9.0 can filter FASTA at well over 2Gbp/s on an AMD CPU from 2021. Compression is very limiting, but I suspect ~1Gbp/s is possible for fastq.gz with a modern CPU. Thanks @curiouscoding.nl for a monumental perf PR! Release 0.9.0 github.com/bede/deacon/... www.biorxiv.org/content/10.1...

Thread scaling performance for compressed and uncompressed sequence input

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Bede Constantinides @bede.im · 12/08/2025

1.6Gbp/s with uncompressed FASTQ on an old 32 core AMD system

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Bede Constantinides @bede.im · 02/08/2025

en.wikipedia.org/wiki/Vehicle...

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Bede Constantinides @bede.im · 02/08/2025

Textbook case of A-pillar blindness

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Bede Constantinides @bede.im · 09/05/2025

Dehosting compressed FASTQ at 150Mbp/s on a MacBook github.com/bede/deacon

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Bede Constantinides @bede.im · 01/04/2025

Not an April fool: I'm delighted to join @pathogenomenick.bsky.social and team in (sunny!) Birmingham to work on viral genomic epi with @articnetwork.bsky.social

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Bede Constantinides @bede.im · 12/02/2025

Feeling silly for skipping flu vaccine this year. Multiplex LFTs are cool though

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Bede Constantinides @bede.im · 03/12/2024

@somersetconf.bsky.social Your paywall just gave me a good chuckle!

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Bede Constantinides @bede.im · 11/11/2024

Blue skies over the Matterhorn last weekend 🤩 #35mm

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Bede Constantinides @bede.im · 16/03/2024

Teide national park, Tenerife #35mm

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Bede Constantinides @bede.im · 03/01/2024

New clear Aeropress confirms long-held hypothesis that even very gentle swirling after inversion (to remove stuck grounds on plunger) creates a problematic domed coffee bed

Clear Aeropress showing uneven coffee bed

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