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An invariant from category theory solves a problem in mathematical ecology [pdf]

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Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#21
post #18

Earlier quoted context omitted.

Why not define ecological diversity as number of distinct biological species living in the area?

This is precisely the question answered by the OP. The answer is, "because there is a whole spectrum of things you might mean by 'diversity', of which 'number of distinct species' is only one extremum".

And also, I assume, because the concept of "species" isn't all that well defined?

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#22
post #18

Earlier quoted context omitted.

Why not define ecological diversity as number of distinct biological species living in the area?

This is precisely the question answered by the OP. The answer is, "because there is a whole spectrum of things you might mean by 'diversity', of which 'number of distinct species' is only one extremum".

Does he provide an example of other definition of diversity that makes sense in biological context?

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#23

Earlier quoted context omitted.

This is precisely the question answered by the OP. The answer is, "because there is a whole spectrum of things you might mean by 'diversity', of which 'number of distinct species' is only one extremum".

And also, I assume, because the concept of "species" isn't all that well defined?

It is well defined: a group of living organisms consisting of similar individuals capable of exchanging genes or interbreeding

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#24
post #22

Earlier quoted context omitted.

This is precisely the question answered by the OP. The answer is, "because there is a whole spectrum of things you might mean by 'diversity', of which 'number of distinct species' is only one extremum".

Does he provide an example of other definition of diversity that makes sense in biological context?

Yes, the two extremes are captured by the common metrics of "species richness" which is the pure "how many unique species are there", and "species evenness", which depends on how evenly distributed the species are. A community in which 99% of individuals are species A and the remaining 1% are from species B-G is exactly as species rich as a community in which there are equal numbers of individuals of each species, but it is much less even (and therefore, under one extreme of diversity, less diverse). In different contexts and for different ecological questions, these two different versions of diversity can matter more or less, and there are metrics which take both into account, but this is a fully generalized solution which shows you relative diversity along the entire spectrum from "all I care about is richness" to "all I care about is evenness".

-edit- by the way, since it may not be obvious to everyone, the reason why an ecologist might care bout evenness is because extremely rare species are often not very important to the wider community. From an ecological function perspective, there is very little difference between my above example of the 99%/1% community and a community that is 100% species A. So an community with two, equally populous species might have more functional diversity than a community with one very abundant species and several more, very rare species.

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#25
post #23

Earlier quoted context omitted.

And also, I assume, because the concept of "species" isn't all that well defined?

It is well defined: a group of living organisms consisting of similar individuals capable of exchanging genes or interbreeding

Ring species make your definition non-transitive. The same with species that can interbreed but exhibit hybrid breakdown.

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#26
post #23

Earlier quoted context omitted.

And also, I assume, because the concept of "species" isn't all that well defined?

It is well defined: a group of living organisms consisting of similar individuals capable of exchanging genes or interbreeding

I invite you to examine the notes of the international ornithological congress... The difference between species and subspecies is quite subtle, and subject to interpretation, because no one is really going to do the experiment to find out if two individuals of geographically district populations can actually still interbreed.

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#27
post #23

Earlier quoted context omitted.

And also, I assume, because the concept of "species" isn't all that well defined?

It is well defined: a group of living organisms consisting of similar individuals capable of exchanging genes or interbreeding

So if you have a few grams of soil and want to know how many species of micro organisms are in there, you're setting them up with dates to see which ones will end up breeding?

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#28
post #9

I am actually sympathetic to category theory, and the research at hand. That being said, what was presented might be interesting if left in terms of linear algebra or graph theory (both legitimate fields). Trying to put a category theory gloss on it just makes it look hollow.

It’s literally the result of a category theorist “following his nose” and solving a problem - mathematical ecologists are perfectly capable of doing some graph theory/linear algebra!

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#29

Can someone tl;dr?

These two talks are for a less mathematical audience.

The first explains the problem of measuring ecological diversity, and the problem with old, traditional measures like Shannon entropy or Gini-Simpson index. The second introduces the species similarity matrix Z and the viewpoint parameter q.

https://www.maths.ed.ac.uk/~tl/riken/

Now you know how to measure the diversity of a given community.

But if you are given the number of species and their similarity matrix Z, and the viewpoint parameter q, if you get to design a community (decide the relative abundance of each species), how would you maximize the diversity? Which distribution of relative abundances will maximize the measured diversity? The posted talk gives the answer, and the surprising result that the answer does not depend on q.

Re: An invariant from category theory solves a problem in mathematical ecology [pdf]

#30
post #18

The book that includes the results from these slides has broader scope, and also can be downloaded for free from arXiv: https://www.maths.ed.ac.uk/~tl/ed/ "The starting point is the connection between diversity and entropy. We will discover: • how Shannon entropy, originally defined for communications engineering, can also be understood through biological diversity (Chapter 2); • how deformations of Shannon entropy e…

Why not define ecological diversity as number of distinct biological species living in the area?

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