Duncan MacCannell
@drm.bsky.social
Molecular #epidemiology & #publichealth. Pathogen #genomics, #microbiology, #emerginginfections, #AMR, (bio)tech and #opendata.
Personal account. Opinions/dad jokes are my own.
https://duncan.bio
🦅 Low productivity public sector employee.
🔬🦠🧬🖥️💉🌻🍩🐸🥪
Personal account. Opinions/dad jokes are my own.
https://duncan.bio
🦅 Low productivity public sector employee.
🔬🦠🧬🖥️💉🌻🍩🐸🥪
Reposted by Duncan MacCannell
For decades, the FDA made it impossible to know which factory your prescription drugs were manufactured in.
ProPublica built a tool to show you. Here’s how we did it.
ProPublica built a tool to show you. Here’s how we did it.
How We Created a Tool That Tells You Where Your Generic Drugs Were Made
For decades, the FDA made it nearly impossible to know which factories were manufacturing your generic medications. ProPublica built a tool to show you. Here’s how we did it.
www.propublica.org
December 22, 2025 at 9:54 PM
For decades, the FDA made it impossible to know which factory your prescription drugs were manufactured in.
ProPublica built a tool to show you. Here’s how we did it.
ProPublica built a tool to show you. Here’s how we did it.
This seems fine.
This is 404 Media's @jasonkoebler.bsky.social waving at himself through a Flock camera; one of 60 we learned was left exposed to the open internet. Not only could anyone with a link livestream it, but some admin portals were open with no login credentials required.
www.404media.co/flock-expose...
www.404media.co/flock-expose...
December 22, 2025 at 10:07 PM
This seems fine.
Reposted by Duncan MacCannell
💾 mlst 2.25.0 has been released!
Fixed a bug that missed alleles in increasingly larger schemes like senterica (thanks @microbiologikat.bsky.social) and updated the databases.
#bioinformatiocs #microbiology #genomics
github.com/tseemann/mls...
Fixed a bug that missed alleles in increasingly larger schemes like senterica (thanks @microbiologikat.bsky.social) and updated the databases.
#bioinformatiocs #microbiology #genomics
github.com/tseemann/mls...
Releases · tseemann/mlst
:id: Scan contig files against PubMLST typing schemes - tseemann/mlst
github.com
December 22, 2025 at 9:15 PM
💾 mlst 2.25.0 has been released!
Fixed a bug that missed alleles in increasingly larger schemes like senterica (thanks @microbiologikat.bsky.social) and updated the databases.
#bioinformatiocs #microbiology #genomics
github.com/tseemann/mls...
Fixed a bug that missed alleles in increasingly larger schemes like senterica (thanks @microbiologikat.bsky.social) and updated the databases.
#bioinformatiocs #microbiology #genomics
github.com/tseemann/mls...
Reposted by Duncan MacCannell
The U.S. will very likely lose its measles-elimination status next month, and Americans will have to confront how difficult this virus can be to control, @katherinejwu.com reports:
Measles’ Most Deceptive Trait
Most cases are mild, obscuring the disease’s worst outcomes.
bit.ly
December 18, 2025 at 2:30 PM
The U.S. will very likely lose its measles-elimination status next month, and Americans will have to confront how difficult this virus can be to control, @katherinejwu.com reports:
The end of an era; a passing of the baton in bacterial annotation.
Prokka was one of the first apps that opened my eyes to the potential of well-designed microbial bfx on a local machine. I have pestered the brilliant @torstenseemann.bsky.social ever since.
Prokka est mort. Vive le bakta.
Prokka was one of the first apps that opened my eyes to the potential of well-designed microbial bfx on a local machine. I have pestered the brilliant @torstenseemann.bsky.social ever since.
Prokka est mort. Vive le bakta.
💾 Prokka 1.15.6 is released!
This is the last major release of Prokka. But don't be sad, because @oschwengers.bsky.social already has an excellent replacement called Bakta you can migrate to.
#bioinformatics #microbiology #genomics
github.com/tseemann/pro...
This is the last major release of Prokka. But don't be sad, because @oschwengers.bsky.social already has an excellent replacement called Bakta you can migrate to.
#bioinformatics #microbiology #genomics
github.com/tseemann/pro...
Release Heading into the sunset · tseemann/prokka
The future
This is probably the last release of Prokka. I won't be making any code changes except bug fixes. I will update the databases occasionally. I strongly recommend you use Bakta by @oschwen...
github.com
December 16, 2025 at 9:13 PM
The end of an era; a passing of the baton in bacterial annotation.
Prokka was one of the first apps that opened my eyes to the potential of well-designed microbial bfx on a local machine. I have pestered the brilliant @torstenseemann.bsky.social ever since.
Prokka est mort. Vive le bakta.
Prokka was one of the first apps that opened my eyes to the potential of well-designed microbial bfx on a local machine. I have pestered the brilliant @torstenseemann.bsky.social ever since.
Prokka est mort. Vive le bakta.
🚂
December 14, 2025 at 2:25 PM
🚂
Continued excellence. An absolutely indispensable piece of open source software.
💾 Shovill 1.4.1 has been released!
The best way to de novo assemble microbial genomes from Illumina FASTQ.
Major fixes to the SKESA module, plasmid mode for the Spades module, and more error checking.
#bioinformatiocs #genomics #microbiology
github.com/tseemann/sho...
The best way to de novo assemble microbial genomes from Illumina FASTQ.
Major fixes to the SKESA module, plasmid mode for the Spades module, and more error checking.
#bioinformatiocs #genomics #microbiology
github.com/tseemann/sho...
Releases · tseemann/shovill
⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads - tseemann/shovill
github.com
December 13, 2025 at 10:09 PM
Continued excellence. An absolutely indispensable piece of open source software.
This is how we ride.
December 13, 2025 at 9:53 PM
This is how we ride.
Reposted by Duncan MacCannell
die-hard | adjective | strongly or fanatically determined or devoted
Die Hard | noun | a Christmas movie
Die Hard | noun | a Christmas movie
December 7, 2025 at 3:10 PM
die-hard | adjective | strongly or fanatically determined or devoted
Die Hard | noun | a Christmas movie
Die Hard | noun | a Christmas movie
Reposted by Duncan MacCannell
The globetrotting ‘starchitect’ created some of the world’s best-known buildings, from the Bilbao Guggenheim to LA’s Walt Disney Concert Hall: on.ft.com/48oRCDN
December 7, 2025 at 11:45 AM
The globetrotting ‘starchitect’ created some of the world’s best-known buildings, from the Bilbao Guggenheim to LA’s Walt Disney Concert Hall: on.ft.com/48oRCDN
Reposted by Duncan MacCannell
Excellent news:
From January 1st 2026, the CNRS will cut access to one of the largest commercial bibliometric databases, Clarivate Analytics' Web of Science, along with the Core Collection and Journal Citation Reports.
The CNRS is breaking free from the Web of Science
From January 1st 2026, the CNRS will cut access to one of the largest commercial bibliometric databases, Clarivate Analytics'
www.cnrs.fr
December 2, 2025 at 6:04 AM
Excellent news:
Good night, sweet prince.
December 3, 2025 at 2:02 AM
Good night, sweet prince.
Reposted by Duncan MacCannell
Thanks to Sesame Street, we have a Knives Out puppet mystery.
Benoit Blanc Gets Puppety in KNIVES OUT x SESAME STREET Short
nerdist.com
December 2, 2025 at 9:38 PM
Thanks to Sesame Street, we have a Knives Out puppet mystery.
The Pledge to the American People was a foundation for Walter Dowdle’s Mountin lecture in 1990, and it used to be as prominent on our website as this 20ft mural in the lobby of one of our buildings.
I used to walk past these words every day, proud that we could rise together with these principles.
I used to walk past these words every day, proud that we could rise together with these principles.
November 30, 2025 at 6:35 PM
The Pledge to the American People was a foundation for Walter Dowdle’s Mountin lecture in 1990, and it used to be as prominent on our website as this 20ft mural in the lobby of one of our buildings.
I used to walk past these words every day, proud that we could rise together with these principles.
I used to walk past these words every day, proud that we could rise together with these principles.
I miss hiking the dish.
The trail is out there: This space-aged Peninsula loop, well loved by locals, is ready for discovery and an excellent late fall hike.
The Bay Area’s perfect fall hike has rolling hills, views and … alien contact?
The trail is out there: This space-aged Peninsula loop, well loved by locals, is ready for discovery and an excellent late fall hike.
bit.ly
November 28, 2025 at 4:31 PM
I miss hiking the dish.
Reposted by Duncan MacCannell
1/ 🚀 Pathoplexus now supports Marburg virus (MARV) and Ravn virus (RAVN) (sister viruses in the same genus). MARV has two main clades and causes severe disease with reported fatality rates of 24–88%.
You can read more detail about adding Marburg here: pathoplexus.org/news/2025-11...
You can read more detail about adding Marburg here: pathoplexus.org/news/2025-11...
November 28, 2025 at 12:37 PM
1/ 🚀 Pathoplexus now supports Marburg virus (MARV) and Ravn virus (RAVN) (sister viruses in the same genus). MARV has two main clades and causes severe disease with reported fatality rates of 24–88%.
You can read more detail about adding Marburg here: pathoplexus.org/news/2025-11...
You can read more detail about adding Marburg here: pathoplexus.org/news/2025-11...
Reposted by Duncan MacCannell
As you’re preparing for your Thanksgiving meal, remember the skilled work it took to get that food to your grocery store.
Tell us your favorite Thanksgiving dish, and we can share some of what we know about the work behind the ingredients.
Tell us your favorite Thanksgiving dish, and we can share some of what we know about the work behind the ingredients.
November 26, 2025 at 6:03 PM
As you’re preparing for your Thanksgiving meal, remember the skilled work it took to get that food to your grocery store.
Tell us your favorite Thanksgiving dish, and we can share some of what we know about the work behind the ingredients.
Tell us your favorite Thanksgiving dish, and we can share some of what we know about the work behind the ingredients.
This is really cool!
This is AMAZING! And it's so fantastic to see Fulgor helping out in these large-scale search tasks cc @jermp.bsky.social @ale-campa.bsky.social !
Optimized k-mer search across millions of bacterial genomes on laptops https://www.biorxiv.org/content/10.1101/2025.11.23.690050v1
November 27, 2025 at 12:12 AM
This is really cool!
They will take the Biscoff from my cold, dead hands.
Sean Duffy, the U.S. transportation secretary, has been urging people for the past week to dress and comport themselves better as a way of restoring “civility” to air travel. On Tuesday, he added another item to his list of concerns: the quality of the snacks handed out on commercial flights.
Transportation Secretary Sean Duffy Wants Healthier In-Flight Snack Options
Sean Duffy, who has been promoting greater decorum among air travelers, said he would like to see choices besides salty pretzels and buttery cookies.
nyti.ms
November 26, 2025 at 10:28 PM
They will take the Biscoff from my cold, dead hands.
As a science major, my favorite course was the Shakespeare elective I took in the drama department.
Why USC students who want to be doctors and engineers are minoring in comedy
Why USC students who want to be doctors and engineers are minoring in comedy
Since 2015, USC's School of Dramatic Arts has offered a minor in comedy performance, but it isn't just aspiring entertainers who pursue the work.
www.latimes.com
November 25, 2025 at 12:52 PM
As a science major, my favorite course was the Shakespeare elective I took in the drama department.
Reposted by Duncan MacCannell
A Washington resident died of complications from an infection with a bird flu strain never before reported in humans, the state Department of Health said.
Read more: https://cnn.it/4o796sL
Read more: https://cnn.it/4o796sL
November 22, 2025 at 2:43 AM
A Washington resident died of complications from an infection with a bird flu strain never before reported in humans, the state Department of Health said.
Read more: https://cnn.it/4o796sL
Read more: https://cnn.it/4o796sL