In terms of wastewater being good for getting samples from lots of people at once and not needing ethics clearance, but being worse for respiratory pathogens, how feasible is airborne environmental DNA sampling? I have never looked into it, I just remember hearing someone give a talk about their work on this, I think related to this paper: https://www.sciencedirect.com/science/article/pii/S096098222101650X
I assume it is just hard to get the quantity of nucleic acids we would want from the air.
Flagging this for @Conrad K. - this seems like perhaps a better version of what you were considering building last year I think? If you have time you might have useful thoughts/suggestions.
I played around with the simulator a bit but didn’t find anything too counterintuitive. I noticed various minor suboptimal things, depending on what you want to do with the simulator some of these may not be worth changing:
I found having many values in relative abundance box for nasal swabs a bit confusing and harder to manage as a user. Why not just specify a distribution with some parameters rather than list lots of possible values drawn from that distribution?
The line is not monotonic as it should be here, seemingly because the simulation hits 30% of the population and then stops. Maybe rather than have the line go back to 0, just stop it when it hits 30%, or have it plateau at 30%?
There were some issues with the sizing of the graph for me. I am using Chrome on Windows 11. At 100% zoom part of the x-axis label and the y-axis numbers are cut off:
And the problem becomes worse if for whatever reason you run lots of scenarios, where the whole bottom half of the graph disappears:
We’ve done a fairly thorough investigation into air sampling as an alternative to wastewater at the NAO. We currently have a preprint on the topic here and a much more in-depth draft we hope to publish soon.
Thanks for the tag @OscarD, this is awesome! I’d basically hoped to build this but then additionally convert incidence at detection to some measure of expected value based on the detection architecture (e.g. as economic gains or QALYs). Something way too ambitious for me at the time haha, but I am still thinking about this.
I definitely want to play with this in way more detail and look into how it’s coded, will try and get back with hopefully helpful feedback here.
Nice, good idea and well implemented!
In terms of wastewater being good for getting samples from lots of people at once and not needing ethics clearance, but being worse for respiratory pathogens, how feasible is airborne environmental DNA sampling? I have never looked into it, I just remember hearing someone give a talk about their work on this, I think related to this paper: https://www.sciencedirect.com/science/article/pii/S096098222101650X
I assume it is just hard to get the quantity of nucleic acids we would want from the air.
Flagging this for @Conrad K. - this seems like perhaps a better version of what you were considering building last year I think? If you have time you might have useful thoughts/suggestions.
I played around with the simulator a bit but didn’t find anything too counterintuitive. I noticed various minor suboptimal things, depending on what you want to do with the simulator some of these may not be worth changing:
I found having many values in relative abundance box for nasal swabs a bit confusing and harder to manage as a user. Why not just specify a distribution with some parameters rather than list lots of possible values drawn from that distribution?
The line is not monotonic as it should be here, seemingly because the simulation hits 30% of the population and then stops. Maybe rather than have the line go back to 0, just stop it when it hits 30%, or have it plateau at 30%?
There were some issues with the sizing of the graph for me. I am using Chrome on Windows 11. At 100% zoom part of the x-axis label and the y-axis numbers are cut off:
And the problem becomes worse if for whatever reason you run lots of scenarios, where the whole bottom half of the graph disappears:
Thanks for the feedback!
The values in the list aren’t drawn from a parametrized distribution, they’re the observed values in a small study.
Done!
Fixed!
This was due to me not testing on monitors that had that aspect ratio. Whoops! Fixed by allowing you to scroll that section.
We’ve done a fairly thorough investigation into air sampling as an alternative to wastewater at the NAO. We currently have a preprint on the topic here and a much more in-depth draft we hope to publish soon.
Oh nice, I hadn’t seen that one, thanks!
Thanks for the tag @OscarD, this is awesome! I’d basically hoped to build this but then additionally convert incidence at detection to some measure of expected value based on the detection architecture (e.g. as economic gains or QALYs). Something way too ambitious for me at the time haha, but I am still thinking about this.
I definitely want to play with this in way more detail and look into how it’s coded, will try and get back with hopefully helpful feedback here.