Bede Constantinides
@bede.im
Interested in infectious disease informatics. Research fellow at the University of Birmingham with @articnetwork.bsky.social. Also cycling, photography, active travel. https://bede.im
That favourite burger place of yours…
ratings.food.gov.uk/business/269...
ratings.food.gov.uk/business/269...
December 9, 2025 at 8:40 AM
That favourite burger place of yours…
ratings.food.gov.uk/business/269...
ratings.food.gov.uk/business/269...
Great to meet IRL! Thanks for your talk and chats with us in Birmingham too
December 9, 2025 at 8:36 AM
Great to meet IRL! Thanks for your talk and chats with us in Birmingham too
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.
You can decompress, dehost and recompress fastq.gz using Deacon in less time than only decompressing using coreutils gzip/zcat or pigz.
December 7, 2025 at 10:58 PM
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.
You can decompress, dehost and recompress fastq.gz using Deacon in less time than only decompressing using coreutils gzip/zcat or pigz.
Front page of Hacker News 🫨
bsky.app/profile/bede...
bsky.app/profile/bede...
September 15, 2025 at 1:11 PM
Front page of Hacker News 🫨
bsky.app/profile/bede...
bsky.app/profile/bede...
Claude's kryptonite: incredibly mundane biology questions
September 5, 2025 at 4:07 PM
Claude's kryptonite: incredibly mundane biology questions
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...
Release 0.9.0
github.com/bede/deacon/...
www.biorxiv.org/content/10.1...
August 15, 2025 at 7:15 PM
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...
Release 0.9.0
github.com/bede/deacon/...
www.biorxiv.org/content/10.1...
1.6Gbp/s with uncompressed FASTQ on an old 32 core AMD system
August 12, 2025 at 2:10 PM
1.6Gbp/s with uncompressed FASTQ on an old 32 core AMD system
August 2, 2025 at 5:13 PM
Textbook case of A-pillar blindness
August 2, 2025 at 5:13 PM
Textbook case of A-pillar blindness
Dehosting compressed FASTQ at 150Mbp/s on a MacBook
github.com/bede/deacon
github.com/bede/deacon
May 9, 2025 at 2:23 PM
Dehosting compressed FASTQ at 150Mbp/s on a MacBook
github.com/bede/deacon
github.com/bede/deacon
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
April 1, 2025 at 1:35 PM
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
Feeling silly for skipping flu vaccine this year. Multiplex LFTs are cool though
February 12, 2025 at 4:16 PM
Feeling silly for skipping flu vaccine this year. Multiplex LFTs are cool though
@somersetconf.bsky.social Your paywall just gave me a good chuckle!
December 3, 2024 at 7:41 PM
@somersetconf.bsky.social Your paywall just gave me a good chuckle!
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
January 3, 2024 at 11:55 AM
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