Ed Tubb Profile picture
14 Oct, 9 tweets, 3 min read
1/n Here's a short thread on COVID-19 deaths in Ontario's second wave.

Why are deaths still relatively low?

After all, weren't we seeing far more people dying in Ontario at this time in the spring?

Well, yes... and maybe no. Image
2/n Here's the fall 2nd wave so far, left, compared to the spring 1st wave to its peak by daily cases, which came in mid-April.

As you can see: In the spring, deaths followed soon after cases — we clearly have *not* seen a similar pattern so far in the fall. ImageImage
3/n But let's remember the spring:

Infections were coming hard and fast.

The system was not prepared.

We weren't testing.

As a result. That case curve *was itself* delayed.

ie: Many infections happened weeks before the case was confirmed; that largely doesn't happen now.
4/n You can isolate this if you replace the spring curve based on the number of cases reported each day (left) with a curve of infections by the estimated date a patient's symptoms began (right).

This is from the province's data, which came after-the-fact. ImageImage
5/n Notice there's suddenly a *much* bigger delay until deaths show up!

Consider where Ontario was at on March 29:

At the time, were seeing ~300 people infected daily, but deaths were still in the low single-digits.

That starts to look more familiar, doesn't it? Image
6/n And we were testing much, much more narrowly at that time compared to now, remember?

This is oft-repeated but important: Compared to today, Ontario had far less capacity to test for COVID-19, and was using it on very ill people, mostly.

We're catching many more cases now.
7/n Where are we at today?

Well, we're seeing around 750-800 cases daily, with deaths still in the low single digits — now *a lot* more cases than the spring peak, but far fewer deaths.

But what's our true apples-to-apples number vs. the spring?

It's really hard to tell.
8/n Are we catching 3x as many cases now vs. the spring? 5x? 9x?

I really can't say.

But is 3x at least plausible?

Sure.

... and that would put the current infection rate about where Ontario was at the end of March — before the deaths truly started up.
9/n There are other reasons to think fewer people are dying now — younger cases or better treatment, for instance.

But... then, it could be that the time hasn't passed yet.

At least to me, it's not yet clear the 2nd wave won't look like the spring.

There's no rule it can't.

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More from @EdTubb

15 Oct
1/n I've been talking for a bit about uncertainty with the Ontario COVID-19 data over the new testing system.

Here's a chart that illustrates my caution: This is cases by the day a patient's sample was collected:

A steep slope up to a peak on Sept. 29.

Then a *big* dip. Image
2/n That dip itself is very easy to explain:

Dark blue is the day appointments started.

Light blue are the days some centres were closed to prepare. Before that, there were a few days of extremely long wait times.

It's what's happened *after* the dip that I'm not clear on.
3/n My question: Is the new testing regime equally as good at catching cases as it was in late Sept.?

If it is, then the data is evidence cases have actually been falling since hitting a peak in late Sept. — maybe they *have* plateaued.

The signal would be something like this: Image
Read 5 tweets
15 Oct
Ontario is reporting 783 new cases this morning, with 5 deaths.

39,961 completed tests, which is up.

Looks like sample-taking is rebounding, too: 49,717 samples added to the queue yesterday.

(That's why "under investigation" is up nearly 10k to 36k)

data.ontario.ca/dataset/status…
The labs first need to *have* samples to be able to test them, so the fact more tests were collected than tested yesterday does not yet suggest there's a "backlog" problem.

With big input numbers, it's normal for a large total of tests to be in the queue at the end of the day.
The question is whether the labs can handle this input after it comes in, so should watch to see if the completed number gets back up into the mid-to-high 40k range tomorrow.
Read 4 tweets
24 Sep
As of 8 pm Wed., Ontario's regional public health units are reporting another 373 confirmed or probable COVID-19 cases, with 4 more deaths.

The 7-day avg. is 🔺 to 403 cases/day and 🔺 to 1.7 deaths/day.

First time the 7-day avg. has been north of 400 cases/day since May 26. Image
Accounting notes:

- Toronto reported 129 new cases but the unit's total rose by 99. In the past, this would suggest data cleaning scrubbed 30 cases, but I don't know yet if that's the case today. Regardless, my total for the day includes 129 from Toronto.
- The province's total for Toronto from the same reporting period was 102.

- The province also had 0 in Middlesex-London, but the unit reported 12.

- So: Add 30ish from Toronto and 12 from London to province's 335 from this morning, and it's much closer to what I'm seeing.
Read 7 tweets
22 Sep
As of 5 pm Tues., Ontario's regional public health units are reporting 50,055 confirmed or probable COVID-19 cases, with 2,872 deaths.

The 7-day avg. is 🔺 to 393 cases/day and slightly 🔽 to 1.4 deaths/day.

470 cases today by my count.

7-day avg. is doubling every 9-10 days.
After a while, you kinda run out of ways to say "this looks bad," but it really is on pace to get awful.

No matter how many more cases we're finding now vs. the spring, Ontario can't sustain this pace of infection for long — and if it does, these rates get ugly quick.
... and then hospitalizations and deaths will follow.

Meantime: Compare where Ontario's larger health units are at now (left) vs. the start of August (right):

From falling cases to frightening growth rates.

It's a hell of a turnaround in less than two months.
Read 4 tweets
22 Sep
1/3 I stopped tracking Ontario's test numbers closely over the summer because, well, the situation was fine.

A sign this is changing: The avg. "backlog" — tests still "under investigation" at the end of each day — is above daily completions for the first time since the spring:
2/2 I like this chart because it shows you:

1. There is, in fact, data to back the anecdotal evidence testing sites and the labs are not keeping up with demand, and:

2. How much of a disaster testing was in the Spring — we needed 4 days' capacity just to clear the backlog!
3/3 I also like it because provincial officials bristled in the Spring at the term "backlog", saying it didn't make sense to call it a "backlog" if less than a day's capacity was simply waiting to be tested on a normal timeframe.

By that standard, the backlog is (barely) back.
Read 4 tweets
21 Sep
1/2 As of 6 pm Mon, Ontario's regional public health units are reporting *a lot* of new cases.

So before I report the #, let me reiterate three key things:

1. On Mondays, my count includes weekend #s in places like Durham, Halton and Guelph, and so tends to be larger that day.
2/2

2. The weekly up-down cycle is accounted for in the 7-day avg., which is *much* more important than any one day's total.

3. My count *does not* predict the province's a.m. count — it's a double-check, not a look ahead.

A longer explainer here:
All that said: As of 6 p.m. Mon., the units are reporting 49,590 confirmed or probable COVID-19 cases, with 2,869 deaths

The 7-day avg. is 🔺 to 364 cases/day and 🔺 to 1.6 deaths/day.

552 cases added, by my count. (Read the caveats above.)

7-day avg. has doubled in 10 days. Image
Read 4 tweets

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