@simonthelwall.bsky.social
Oh, this is very interesting
@acciochoc.bsky.social - if you haven't seen this.
@acciochoc.bsky.social - if you haven't seen this.
Really pleased to share the first paper to come out of the lab.
We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung.
The phylogenies indicate that the clones moved from lung->gut
www.nature.com/articles/s41...
We found that hospital patients were frequently colonised with P. aeruginosa and that the same clone was shared between the gut and the lung.
The phylogenies indicate that the clones moved from lung->gut
www.nature.com/articles/s41...
High frequency body site translocation of nosocomial Pseudomonas aeruginosa - Nature Communications
Here, the authors report within-host diversity and body site translocation dynamics in hospital samples of Pseudomonas aeruginosa and reveal that body site sharing was likely due to within-patient tra...
www.nature.com
November 27, 2025 at 11:27 AM
Oh, this is very interesting
@acciochoc.bsky.social - if you haven't seen this.
@acciochoc.bsky.social - if you haven't seen this.
Reposted
Looking for recommendations of teaching books on parallel processing using R - is there anything out there? My team are taking first steps in this...
Please do not say use python instead.
Please do not say use python instead.
November 26, 2025 at 11:59 AM
Looking for recommendations of teaching books on parallel processing using R - is there anything out there? My team are taking first steps in this...
Please do not say use python instead.
Please do not say use python instead.
Joint roasting in the oven, glass of cider and Pink Floyd playing while I add comments to a colleague's manuscript. Pretty good way to spend a winter Sunday afternoon.
November 23, 2025 at 4:40 PM
Joint roasting in the oven, glass of cider and Pink Floyd playing while I add comments to a colleague's manuscript. Pretty good way to spend a winter Sunday afternoon.
Look, I put that blind up straight, it's just that the house isn't.
November 16, 2025 at 3:34 PM
Look, I put that blind up straight, it's just that the house isn't.
My cheat code is that you can create a column with just the lower or upper by doing
dat <- dat %>% mutate(
lci = binom.confint(x, n, method = "Wilson")$lower
)
dat <- dat %>% mutate(
lci = binom.confint(x, n, method = "Wilson")$lower
)
My #rstats cheat code for today is the binom.confint function in the binom package that will spit out *12* different ways of calculating a CI for a proportion.
Also, this is why you use R for statistics...
(and of course the correct CI method is bayes 😎)
Also, this is why you use R for statistics...
(and of course the correct CI method is bayes 😎)
November 16, 2025 at 11:50 AM
My cheat code is that you can create a column with just the lower or upper by doing
dat <- dat %>% mutate(
lci = binom.confint(x, n, method = "Wilson")$lower
)
dat <- dat %>% mutate(
lci = binom.confint(x, n, method = "Wilson")$lower
)
The latest ESPAUR report is out. 300 epic pages packed full of graphs, maps, tables and commentary on #AMR and antimicrobial consumption.
There's a webinar scheduled to share the highlights but I don't have the details to hand.
www.gov.uk/government/p...
There's a webinar scheduled to share the highlights but I don't have the details to hand.
www.gov.uk/government/p...
English surveillance programme for antimicrobial utilisation and resistance (ESPAUR) report
The ESPAUR report includes national data on antimicrobial prescribing and resistance, antimicrobial stewardship implementation and awareness activities.
www.gov.uk
November 13, 2025 at 8:38 PM
The latest ESPAUR report is out. 300 epic pages packed full of graphs, maps, tables and commentary on #AMR and antimicrobial consumption.
There's a webinar scheduled to share the highlights but I don't have the details to hand.
www.gov.uk/government/p...
There's a webinar scheduled to share the highlights but I don't have the details to hand.
www.gov.uk/government/p...
Reposted
Algorithms misclassify #Cdiff infections by ignoring emergency department stays. The new UK Health Security Agency definition fixes this https://ow.ly/2HN750XlBSk
November 12, 2025 at 6:00 PM
Algorithms misclassify #Cdiff infections by ignoring emergency department stays. The new UK Health Security Agency definition fixes this https://ow.ly/2HN750XlBSk
The issues with this study😮
Some of the best data detective work I’ve seen, and embarrassing for @bmj.com
This is one of the most remarkable academic debacles I've ever seen.
A large RCT got published in BMJ. There are currently 44 Pubpeer comments, mostly about the data, including...well. Read for yourself.
pubpeer.com/publications...
A large RCT got published in BMJ. There are currently 44 Pubpeer comments, mostly about the data, including...well. Read for yourself.
pubpeer.com/publications...
November 11, 2025 at 5:13 PM
The issues with this study😮
What?
Solar’s price drop is astonishing: panels are now 98% cheaper than when I first analyzed them in 2004.
Today, building a fence with solar can be cheaper than using wood.
Today, building a fence with solar can be cheaper than using wood.
November 10, 2025 at 11:31 AM
What?
Can feel the ghosts of my Yorkshire ancestors screaming out in pain and horror as I permit pre-made Yorkshire puddings to go on the shopping list.
Deep, deep shame.
Deep, deep shame.
November 8, 2025 at 4:39 PM
Can feel the ghosts of my Yorkshire ancestors screaming out in pain and horror as I permit pre-made Yorkshire puddings to go on the shopping list.
Deep, deep shame.
Deep, deep shame.
What?
Australia has so much electricity from solar power that it is going to start offering free electricity to everyone for at least three hours during the day as the wholesale price of power goes negative
electrek.co/2025/11/04/a...
electrek.co/2025/11/04/a...
Australia has so much solar that it's offering everyone free electricity
Australia's extensive solar power penetration makes so much energy that the government wants to offer free electricity at peak hours.
electrek.co
November 6, 2025 at 8:17 PM
What?
I will be the first to admit that I'm not an expert on AI and that I have a very basic understanding, but wtf is this?
"AI is not like any software we’ve ever written before because we do not know how it works. We don’t teach AI about our world: it teaches itself. ..."
"AI is not like any software we’ve ever written before because we do not know how it works. We don’t teach AI about our world: it teaches itself. ..."
New post just out:
"How to make government work"
We have a guest post from one of the people who built the AI Security Institute on a rare UK success story. With important lessons for the rest of government.
(£/free trial)
open.substack.com/pub/samf/p/h...
"How to make government work"
We have a guest post from one of the people who built the AI Security Institute on a rare UK success story. With important lessons for the rest of government.
(£/free trial)
open.substack.com/pub/samf/p/h...
How to make government work
Lessons from a rare British success story
open.substack.com
November 5, 2025 at 6:59 PM
I will be the first to admit that I'm not an expert on AI and that I have a very basic understanding, but wtf is this?
"AI is not like any software we’ve ever written before because we do not know how it works. We don’t teach AI about our world: it teaches itself. ..."
"AI is not like any software we’ve ever written before because we do not know how it works. We don’t teach AI about our world: it teaches itself. ..."
Reposted
Fancy a PhD at the interface between one of the biggest existential threats ever faced by humanity and tuberculosis? Then come apply!
PhD position (London, UK)
Modelling the impact of climate change on TB
with @cfmcquaid.bsky.social @mjsaunder.bsky.social @hr-stagg.bsky.social
at @lshtm-tbmod.bsky.social @lshtm.bsky.social
More details: http://iddjobs.org/jobs/2388
Modelling the impact of climate change on TB
with @cfmcquaid.bsky.social @mjsaunder.bsky.social @hr-stagg.bsky.social
at @lshtm-tbmod.bsky.social @lshtm.bsky.social
More details: http://iddjobs.org/jobs/2388
November 5, 2025 at 11:14 AM
Fancy a PhD at the interface between one of the biggest existential threats ever faced by humanity and tuberculosis? Then come apply!
If House of Guinness is about anything other than the early days of statistical inference, then I'm just not interested.
November 1, 2025 at 9:23 PM
If House of Guinness is about anything other than the early days of statistical inference, then I'm just not interested.
I'm quite pleased with this - I've been training for a 10 km run and I thought I'd dig in to what my #Strava data could show me.
I used the #rstats package rStrava to pull my data and built myself an R Shiny dashboard to produce some analyses.
Rather than share the dashboard with its API tokens
I used the #rstats package rStrava to pull my data and built myself an R Shiny dashboard to produce some analyses.
Rather than share the dashboard with its API tokens
October 28, 2025 at 8:54 PM
It's been so long since I've updated my GitHub pages, I've got to re-download Ruby and Jekyll as they're not installed. Yikes.
October 28, 2025 at 6:30 PM
It's been so long since I've updated my GitHub pages, I've got to re-download Ruby and Jekyll as they're not installed. Yikes.
Woah.
The immune system is mind-boggling.
The immune system is mind-boggling.
I will try to do a tweetorial about this paper when I have more energy but this is really important data. It looks (tentatively, preliminarily) that COVID-19 mRNA vaccines might significantly enhance the effectiveness of cancer immunotherapy (subject to many caveats).
SARS-CoV-2 mRNA vaccines sensitize tumours to immune checkpoint blockade
Nature - mRNA vaccines targeting SARS-CoV-2 also sensitize tumours to immune checkpoint inhibitors.
rdcu.be
October 26, 2025 at 6:40 AM
Woah.
The immune system is mind-boggling.
The immune system is mind-boggling.
I thought this was a self-set foxglove, but now I'm not so sure. Have I just carefully replanted a weed?
Anyone more botanical than me care to offer an opinion?
Anyone more botanical than me care to offer an opinion?
October 25, 2025 at 1:49 PM
I thought this was a self-set foxglove, but now I'm not so sure. Have I just carefully replanted a weed?
Anyone more botanical than me care to offer an opinion?
Anyone more botanical than me care to offer an opinion?
Very much enjoying ?post rock from Just Mustard thanks to BBC radio 6.
October 24, 2025 at 2:49 PM
Very much enjoying ?post rock from Just Mustard thanks to BBC radio 6.
Really interesting paper on semi automated surveillance of surgical site infection. Interesting to note value of including number of blood culture requests as predictive factor - not normally collected in SSI surveillance.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Semi-automated surveillance of surgical site infections using machine learning and rule-based classification models - npj Digital Medicine
npj Digital Medicine - Semi-automated surveillance of surgical site infections using machine learning and rule-based classification models
www.nature.com
October 23, 2025 at 11:15 AM
Really interesting paper on semi automated surveillance of surgical site infection. Interesting to note value of including number of blood culture requests as predictive factor - not normally collected in SSI surveillance.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
>400 km of running so far this year. Pleased with that - most I've ever run in a year.
Hoping to make it to >=500 km by end of December.
Hoping to make it to >=500 km by end of December.
October 23, 2025 at 10:20 AM
>400 km of running so far this year. Pleased with that - most I've ever run in a year.
Hoping to make it to >=500 km by end of December.
Hoping to make it to >=500 km by end of December.
Oh, this should be good
Clostridioides difficile is a gram-positive spore-forming anaerobic bacterium that can produce toxins.
Learn more about the epidemiology, diagnosis, and treatment of recurrent C difficile infections in this JAMA Insights 💡:
ja.ma/49deC9s
Learn more about the epidemiology, diagnosis, and treatment of recurrent C difficile infections in this JAMA Insights 💡:
ja.ma/49deC9s
October 20, 2025 at 5:26 PM
Oh, this should be good
Steve has sensible points to make, but I'm just here to make the observation that it's cool to see politics bloggers using ggplot.
October 19, 2025 at 1:18 PM
Steve has sensible points to make, but I'm just here to make the observation that it's cool to see politics bloggers using ggplot.
work-in-progress of my rStrava-based Shiny dashboard.
Really quite pleased.
Really quite pleased.
October 16, 2025 at 8:43 PM
work-in-progress of my rStrava-based Shiny dashboard.
Really quite pleased.
Really quite pleased.
If Garmin and Strava properly fall out, it's going to really scupper my run -> Garmin -> Strava -> #rstats shiny workflow. And that will be really disappointing.
October 16, 2025 at 8:07 PM
If Garmin and Strava properly fall out, it's going to really scupper my run -> Garmin -> Strava -> #rstats shiny workflow. And that will be really disappointing.