I’ve been promising to update my comparison of how the July model projections are going. So here it is. As you can see, the model (orange line) did quite well in predicting admissions for the first couple of weeks (in mid/late July), but missed the sudden decline in cases… 🧵
…that happened after the Euros, and so the actuals fell below the projection (good news). More recently, the gap has been closing, but that’s for the (bad) reason that hospitalisations have started to rise again, while my model was projecting a gentle decline.
A couple of notes on the other models shown here:
1. I think we may have done LSHTM a slight favour by selecting their non-waning model for comparison, when their (more conservative) waning model was probably more their real central case.
2. Conversely, we did Warwick a disservice by selecting the scenario that had an immediate step-up in risky behaviour. They also produced an array of scenarios with gradual increases in contacts, which I believe are included in @GrahamMedley’s charts.
(it’s definitely worth following Graham for those updates, by the way, and they’ll give you a better sense than my chart does of how the actuals are comparing to the full set of SPI-M model projections over time.
The actuals aren’t following any of the models particularly closely right now, but we don’t know what will happen in the next 2-3 months, and it may yet be that one of the Warwick scenarios with a later peak will turn out to look fairly accurate).
So, the big question is, what happens in September and October? I’m genuinely not sure, because I can point to several reasons why cases should increase e.g. schools and unis going back, cooler weather, waning immunity, and gradually relaxing behaviour (e.g. less WFH)…
…and also several reasons why cases should decrease e.g. more second doses coming into effect, plus vaccinations of 16-17yos (and maybe younger), as well as likely booster vaccinations for older/vulnerable groups. Plus increasing immunity from infection, of course.
So which team will win the “tug of war”? I don’t know, and note that some of the factors (e.g. immunity waning, and behavioural adjustments) are not that well modelled – if at all – at present. I need to do some work on my model to handle waning and booster vaccinations,
…and even then I’m not confident that it will produce a clear answer, given the wide ranges of uncertainty around some of the key assumptions. Just to take one example, we don’t really know by how much voluntary cautious behaviour is reducing R right now. It might be a lot,
…or it might be just a little, and it makes a big difference to your expectations of what could happen this winter (and next spring). So I’ll let you know if/when I have some clearer thoughts on this, but it might take a while, given the complexity of the modelling.
Also to set your expectations, my plan is to spend less time over the next few weeks on daily data analysis – since there are many people better able to do this than me – and focus my limited time on medium-term modelling, since there are few others working in that space.
(of course, I spent a good chunk of last week doing short-term data analysis on Boardmasters – it’s hard to resist when you can see a puzzle in the data and want to find the answer. So feel free to point out if I seem to be getting distracted from the main task at hand!) /end

• • •

Missing some Tweet in this thread? You can try to force a refresh
 

Keep Current with James Ward

James Ward Profile picture

Stay in touch and get notified when new unrolls are available from this author!

Read all threads

This Thread may be Removed Anytime!

PDF

Twitter may remove this content at anytime! Save it as PDF for later use!

Try unrolling a thread yourself!

how to unroll video
  1. Follow @ThreadReaderApp to mention us!

  2. From a Twitter thread mention us with a keyword "unroll"
@threadreaderapp unroll

Practice here first or read more on our help page!

More from @JamesWard73

12 Sep
One of the questions I often get in response to my modelling threads (such as last Thursday’s below) is: what does this imply for levels of hospital occupancy with covid? Unfortunately I don’t have a good model of hospital stay dynamics, but helpfully...
…I know a man who does, and @nicfreeman1209 very generously offered to convert my various scenarios for weekly admissions into a corresponding occupancy forecast. So what follows is very much a collaboration on the analysis, but the policy commentary is all mine.
Essentially, Nic’s model uses the known data for hospital admissions and occupancy to estimate a distribution of how long people stay in hospital with covid – here’s some discussion on an earlier version:
Read 13 tweets
9 Sep
Apologies to those of you who’ve been waiting for a model update: I’ve been slowed down a bit by work, start-of-term chaos with the kids, and by trying to organise an U13 girls rugby team. But it’s finally here in its glorious 25-tweet thread detail. Hope you enjoy…. 1/25
The July iteration of my model did an OK job of predicting (at least in “ballpark” terms) the level of hospital admissions over the last couple of months – in fact it’s almost spot-on right now, albeit maybe in the same way that a stopped clock is correct twice a day. 2/25
But that model won’t be a good guide to what happens over the autumn and winter, because it’s missing two significant drivers: waning immunity, and booster vaccinations. So I’ve upgraded the model to include those factors, and am ready to give you the results. 3/25
Read 25 tweets
9 Sep
I know, I’m meant to be doing that modelling thread (it will come later this evening!). But first I got distracted by today’s release of data from @PHE_uk – thanks to the amazing @kallmemeg and the team there. The main point of interest in today’s report has been …
… the release of data on cases, hospitalisations and deaths split by vaccine status. In particular Table 4 of the report has caused some consternation as it suggests case rates are higher in vaccinated groups than unvaccinated, for age groups 40-79.
There are some real reasons why we might expect vaccine effectiveness to have declined – including the impact of delta, and waning of immunity over time. But there are also a number of potential confounders and distortions here, including:
Read 12 tweets
30 Aug
I spent a bit of time yesterday building immunity waning into the model, which is one of those bits of code I hope no-one ever sees (because it’s a massive hack), but it seems to be working OK so 🤷‍♂️. Now all I need is some numbers to go in the waning rate assumptions! 🧵
And that’s where I could use some help. The way the model works is as follows: as well as the classic compartments for fully susceptible (S) and recovered and immune via prior infection (R), I also have states for immune by vaccination (V) and partially immune (P).
People in state P are able to get infected, and to pass the disease on, but are unable to get severe disease (so won’t be hospitalised, or die). So in terms of waning, I’ve set things up with three different waning processes: R to P, V to P, and P to S, as illustrated below:
Read 8 tweets
28 Aug
England case data is looking moderately encouraging, with case ratios (compared to same day last week) dipping below 1 even on my adjusted curve which removes the Boardmasters spike – see orange line below. Note that last day will be adjusted up, but is unlikely to go over 1. 🧵
As a result, my estimate of R in England also dips below 1 (but only just… to 0.99) for the first time since early August.
I’m conscious that the case rates in over-40s are still growing, which isn’t ideal, and may mean that hospital admissions continue to grow as well. The hope is that, as in previous cycles, it’s the younger groups that move first, and then drag the other ones along.
Read 5 tweets
26 Aug
Three points as a postscript to the @boardmasters saga:
1. My final estimate of the number of reported covid cases from infections at Boardmasters is just under 9,000 (note this is restricted to the 15-19yo age group, as that’s where there’s a clear signal at regional level) 🧵 Image
2. While the Boardmasters spike was artificially increasing reported weekly case ratios for England last week, it is now artificially depressing them (as last week’s spike is now the baseline we’re measuring against) – note the adjusted orange line is now above the blue. Image
Without the spike, the case ratio for England would have been almost exactly flat for specimen dates 17th-20th Aug, suggesting an underlying trend with R = 1. So if people tell you English cases are falling, they may be literally correct, but I’d not celebrate too fast.
Read 10 tweets

Did Thread Reader help you today?

Support us! We are indie developers!


This site is made by just two indie developers on a laptop doing marketing, support and development! Read more about the story.

Become a Premium Member ($3/month or $30/year) and get exclusive features!

Become Premium

Too expensive? Make a small donation by buying us coffee ($5) or help with server cost ($10)

Donate via Paypal Become our Patreon

Thank you for your support!

Follow Us on Twitter!

:(