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Randomness in Evolution: Valid and Invalid Usage

I like the nut example-- It's a good analogy... though Jimbob and Mijo suck at analogies as evidenced by this and other threads.

The "Brazil Nut plot theorists" i.e.(creationists) have a vested interest in people believing that the Brazil nuts on top are part of a plot to make it look like there are more nuts than they are.

Their technique is to laugh off the scientists and say, "they think those nuts just got there randomly-- ha what are the odds of that... they don't understand how statistically improbable that is!"

People hearing this will say, "how is it the Brazil nuts could just randomly end up on top every time?? Those scientists are full of crap".

But no scientist is saying the nuts got there randomly. There may be randomness involved... but the Brazil nuts don't end up on top randomly. We understand the principals and once anyone else did, they'd see how laughable the "Brazil nut plot" is.

And they'd see what Behe, Jim-Bob, Mijo, and Walter Wayne are doing as well. They need evolution to be random so that the "Brazil nut plot" looks more plausible. At least that's what I see. What else could it be? Isn't their goal obfuscation and a need to tie everything to random and "get the last word"-- even if they don't "know" that is what they are doing? What else do they imagine they are accomplishing? How are they not being like the "Brazil Nut Plot" theorists of my analogy?

And so they aim to deride those who are clear on the simple facts because the simple facts not only make people aware of how there is no Brazil nut plot... but also just how dishonest obfuscatory the Brazil Nut conspirators are.

The Brazil Nut conspirators must obfuscate the real understanding of the "Brazil nuts on top" for themselves and everyone else... lest people comprehend what's really going on, and just how full of BS those who speak on behalf of the nut conspiracy are. In the process they spread a bigotry against those who would do and can explain and would explain the concept to anyone who was actually interested in the truth.

The only problem with articutett's attempt at a summary of our views* is that it doesn't even begin to come close to an accurate portrayal of out views. Our views are that even if the movements of the nuts are completely random, processes such as the infill and close packing of smaller particles behind the bigger particles would force them to the top. There is no room, even implicitly, for a guiding intelligence (supernatural or otherwise) to conspire to put the Brazil nuts at the top.

I would really like to know why articulett insists on misrepresent people's positions if her position is as strong as she says it is.

*jimbob and Walter Wayne, let me know if you don't agree with anything I said.
 
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I think Walter Wayne was saying that it is like a drunkard's walk, the whole trajectory is random, but depends on the past history.
I get that. In the same way that the density or temperature of a gas is non-random so is the sum of the dice. Even though each particle may be in a random walk or each die may be behaving randomly. Density is actually an exact analogy, it is the integral(sum) over the energy distribution.

<nitpick>some smoke detectors do produce an oputput that is a "level of smoke" which is returned to the controller, wheich then assesses whether the whol system is indicitive of a dangerous fire or a false alarm. For example ambient pollution, or cigarette smoke. In the industry, these are termed smoke "sensors" rather than "detctors" which do only have an alarm/non-alarm output, I have previously worked in (in the fire "detector" and "sensor" development area). </nitpick>
It doesn't really matter if some are. The smoke detector is a counter example, thus there only need to exist one smoke detector that has binary output to prove the point. You might as well have said that it could be a spark plug. It wouldn't make a difference to the logic of the point.

I have said that in a stable environment, and over a long enough time, then you don't need to invoke randomness. This does cover a lot of examples used when discussing how evolution works, for example the advantage of sight.

I would still argue that the particular adaptations could still be random, e.g. compound eye vs simple eye, position of the retina etc... but the adaptation to the environment would be there.

However this stable environment is only a subset of the situations where evoution occurs, even if it is the simplest to understand.

#1 See the punctuated equilibrium example. I brought that up first and I'm not sure why you don't consider that persuasive evidence. It shows that in response to change the species changes quickly and reliably. What this point means is that evolution is driven by the environment.

#2 The punctuated equilibrium argument dovetails well with the explanations for the variation in eyes. Compound eyes support the evolutionary strategy of insects. Survival via multiplicity and redundancy. Simple eyes like ocelli show up in spiders, which generally do not require good vision. Their niche requires them to be able to sense creatures in their web, and quite unsurprisingly they have very high sensitivity to vibration. This example if anything is a testament to the non-randomness of evolution.

#3 For there to be any sort of spontaneous randomness a species needs to be in a situation where the environment favors either of two possible mutations equally and these mutations have to be comparably likely. Th evidence that this sort of spontaneous bifurcation happens is non-existent and the math indicates that it is vanishingly unlikely. For your example to make sense it would have to be reasonably probable that a snail could spontaneously generate a compound eye. Of course, this is exactly what doesn't happen in evolution, although it is the sort of thinking that creationists employ. It is this very sort of contradiction that indicates that evolution must be non-random.

#4 If your claim is that the path of evolution is random, it simply reduces to the claim that history(or prehistory) is random. So, if you could, do you think you could start saying that rather than singling out evolution as being somehow different than the claim that comets are random? It would save people a lot of time in 'spotting the crackpot' so to speak.

There is quite a bit of evidence that it is chaotic, but that is why I started the other thread...
You may think this, but there was by no means a consensus in the other thread. I was disputing your claim that this was somehow the consensus. Moreover, it seemed to me that many of the people who were most familiar with the topic tended to disagree.

Positive feedback loops tend to produce unstable systems, indeed they are often used to produce oscillators. Ecosystems have lots of positive feedback loops, which would predispose the system to chaotic behaviour.
Okey dokey. Once again you provide your intuitions. What positive feedback loops? The assertion that ecosystems have 'lots of positive feedback loops' is at best a hunch.

Moreover, I double checked with a friend of mine who knows a lot more about control systems than probably anyone on this board and he verified what I was pretty sure is already true. Whether or not a system has positive feedback loops says nothing about whether the system is stable, unstable, chaotic, or not chaotic. A system with positive feedback loops can be characterized with a differential equation. Upon solving this equation whether the system is stable or not depends upon what the poles of the solution happen to be. Not surprisingly this is almost exactly the same claim as the one made by CoolSkeptic in the chaos thread. You must be able to characterize the system to determine whether its chaotic.

Also what aspect of ecosystems do you assert is chaotic? As I understand it an ecosystem quickly approaches a Nash equilibrium. The aspects of game theory that dominate ecological science indicate regularity. For example, dawkins talks about how the distribution of sexes in a species is described reliably by a game theoretical approach.

Because that is how the maths works out. If they depend on position or momentum, they will eventually depend on quantum effects.

Um.....you are going to have to show me that math, because I think you are completely wrong. For example...I can calculate the position of a bullet after a certain amount of time from the momentum of the rifle during recoil, and the mass of the bullet. Change in any of the parameters leads to a linear change in the output. Thus the system is neither chaotic, nor unstable. Moreover it involves no quantum terms.

x = t*(p/m)

x = position
t = time
p = momentum
m = mass

Anything that affects the reproductive success of an organism, so including: the weather, asteroid strikes (rarely), competition, availability of mates, fertility, predation, parasites, food supply, territory, water supply, volcanoes (rarely), lightning strikes, etc...

Nice laundry list....here is my laundry list response:
Lightning:only affects individuals, averages on level of species
Weather,Water supply: effects last much shorter periods of time than even individual creatures. Ie averages on the time scale of species existence.
Competition,availability,fertility, predation,parasites,food supply, territory: Described with a non-chaotic, non-random nash equilibrium.
Volcanos, Asteroid strikes: only random in the sense that 'the sun rising tomorrow' is random.

Of course, again, these arguments reduce to history being random as well

There are many positive feedback loops, one has been hypothesised for the non-recovery of the grand bannks cod fishery. The simple analysis being that the reduced adult cod population has reduced the predation of smaller fish. These smaller fish, in turn prey on the young cod fry. The reduced predation of the smaller fish has increased the predation of the cod-fry, which in turn acts to keep the cod population down.
Right....see my explanation on positive feedback. This example is perfect, this predation cycle drives down the cod population until either #1 the cod go extinct or #2 it stabilizes due to decreased food supply for small fish. Stable Equilibrium Not Chaos

There are obviously negative feedback loops involved in ecosystems as well as positive ones, however looking at the history of evoution
Looking at the history of evolution what? Most systems in the biological world eventually reach a resource constraint, ie negative feedback, thus a system with positive feedback eventually moves into a negative state and the system stabilizes. Of course....see my previous analysis about how your preoccupation with feedback loops is irrelevant.

I don't get your question here. "Disruptive" mutations are rare, but they can be significant. If you are talking about geological timescales, then random events become more important in affecting how the developmetnal course of the ecosystem.

If the ecosystem starts to change, then (almost by definition) the organisms in that environment will be less well adapted to the altering environment than they would have been to the previous, stable environment. This would mean that variations are more likely to be eneficial than when the organisms were well-adapted.

Some of the positive feedbaclk loops would be those that frive the evolution of symbiotic relationships, where particular flowers and insects co-evolve.

My point is you have no idea how frequent these mutations are. My point is that if you look at the rate of birth and mutation in organisms we have reason to think that disruptive mutations are virtually certain on a geological time scale, even though they may be improbable on the scale of a generation.

For example, Gould has an example in the structure of evolutionary theory with a proto-lungfish. This creature starts as a fish with no lungs, there is a drought(ie weather effect), the environment dries up, the fish evolves lungs, the drought ends the lungs quickly become vestigial and disappear. There is another drought, again the fish evolves lungs, again the drought ends and the lungs disappear. This happens over and over in the fossil record. You would think that lungs are an incredibly disruptive mutation, but it turns out that on a geological timescale, for that organism they were not. In fact, their development was inevitable.

Earlier on, I described the course of evolution as similar in some respects to a river system, these are often chaotic, and the course can seem stable for long times, but they can also change suddenly. If the topography is steep the change is less likely, if the gradients are shallow, then change is more likely. Similarly, in locally flat regions of the fitness landscape, or minor "saddles", slight changes could tip the evolution of the organism's descendents down different routes.

I remember this, but it is an example divorced from the theory and reality of evolution. Gould talks about this as well. In places that have a flat landscape the diversity of the gene pool increase to the point that additional mutations stop the creature from breeding with itself. If this cannot occur it cannot spread any further. Moreover the landscape is constrained by resource(energy) limitations in the environment. So there will always be resistance to moving away from the nash equilibrium and 'meandering' around the fitness landscape. The organism can only change when the fitness landscape changes.


I would also disagree that the assertions were "vigorously" shot down. I still contend that most physicists think that the timescales for quantum uncertainty to affect the weather is quite short. When I studied physics, the consensus seemed to be about 6-weeks. My very naive treatment of the numbers came to a conclusion that was not vastly different. Life has existed for over 3-billion years, so that is the sort of timescale that would be needed if random events didn't affect natural selection affecting the weather.

There certainly wasn't 'consensus' but it seemed like the people who were most knowledgeable suggested you learn some math. As to where that 6-weeks number comes from, as was noted in the other thread, unless you've got a secret model of weather you haven't published, then you are pulling that number out of your posterior.

Moreover these vague claims about weather don't prove anything about evolution, unless you are making the very non-mainstream claim that quantum effects are significant in climate. A rain storm isn't going to have any effect on a species, even a hurricane. You don't hear about any extinctions from those sorts of events, because even if we can't predict the specific time and strength, they happen several times every year and species are hardened against them. So how does weather even matter at all? Could you provide a concrete scenario.

As to 3-billion years...you are doing the analysis backwards. The longer the period of time the more likely that all different configurations are tried and any randomness averages out. (ie many hurricanes/monsoons per year)
 
Beautifully stated Zosima. Really. Elegant. Clear. Concise. Accurate. And specifically tailored to jimbob. But don't expect it to make a dent with him. Just revel in the impenetrability coupled with the imagined expertise. You will learn to recognize it in it's many different forms. It's not fixable-- but others read and learn and your skin gets thickened in the process as does your own understanding of what Dawkins et. al. are actually saying and why the self appointed experts aren't really saying anything at all.
 
I think Walter Wayne was saying that it is like a drunkard's walk, the whole trajectory is random, but depends on the past history.

Talking of which...

http://www.bbc.co.uk/radio4/science/thematerialworld.shtml

This week’s Material World includes an interview with Dr. Leonard Mlodinow, Computation and Neural Systems, California Institute of Technology (Caltech), whose new book is The Drunkard’s Walk: How Randomness Rules Our Lives (Allen Lane).

Use the "Listen again" feature to hear the programme and find out how a real scientist defines random. :)
 
Beautifully stated Zosima. Really. Elegant. Clear. Concise. Accurate. And specifically tailored to jimbob. But don't expect it to make a dent with him. Just revel in the impenetrability coupled with the imagined expertise. You will learn to recognize it in it's many different forms. It's not fixable-- but others read and learn and your skin gets thickened in the process as does your own understanding of what Dawkins et. al. are actually saying and why the self appointed experts aren't really saying anything at all.

:blush: Thanks, I do feel like I'm learning something from this even if it seems like some of my fellow forum-goers' ideas aren't really evolving.(lol, I can't help it with the corny jokes) At the very least, this discussion might convince someone to read a book by an expert on the subject.
 
This week’s Material World includes an interview with Dr. Leonard Mlodinow, Computation and Neural Systems, California Institute of Technology (Caltech), whose new book is The Drunkard’s Walk: How Randomness Rules Our Lives (Allen Lane).
Speaking of drunkard's walks, this interview with Stephen Jay Gould is also interesting. And speaking of how randomness rules our lives, this website by evolutionary biologist Laurence A. Moran -- author of "Evolution by Accident" -- is also on topic. Neither one appears particularly afraid to call evolution "random".
 
All treatment with antibiotics is acidental since penecillin was discovered by accident.

All modern surgery is WWII since most of it was developed there.
 
Speaking of drunkard's walks, this interview with Stephen Jay Gould is also interesting. And speaking of how randomness rules our lives, this website by evolutionary biologist Laurence A. Moran -- author of "Evolution by Accident" -- is also on topic. Neither one appears particularly afraid to call evolution "random".

Those are neat articles, thanks for the links. I don't think I would disagree largely with either of them.

As Moran states evolution is as random as history is random, which I certainly wouldn't disagree with. (In fact, I said exactly that in my last post.) Moreover, the claim that evolution is 'random' in the sense that it is unpredictable is indisputable(unless someone wants to start predicting the course of history.) Incidentally, this is the definition that Moran uses for random.

The only real issue I might take is with Moran's characterization of genetic drift, which seems a bit antiquated. If you look at explanations of genetic drift they always start with a 50/50 distribution of alleles in a gene pool. If the distribution is not 50/50 and genetic drift is significant, because the population is small, it reliably drives the allele with smaller frequency out of the gene pool. If genetic drift is insignificant, because the population is large, then it takes a back seat to natural selection. This is the reasoning that causes evolutionary theorists to favor the importance of selection over drift. This is particularly true with new mutations. Since mutations with small frequencies tend to be drifted out of the gene pool, a new mutation can never drift its way into significance.(or at least such an outcome is vanishingly improbable) It must be favored by selection to ever reach a significant frequency.

Insofar as Gould's interview is concerned, I'd recommend not reading too much into Gould's attempt to explain a random walk to the masses. Especially since he's making the point in the context of trying convince people that the progressivist view of evolution in wrong. Gould describes evolution as almost exactly analogous to a gas. It reliably expands to fill the space available to it, despite the unpredictable behavior of its individual elements. This is life filling all available ecological niche's. Gould too would argue that any 'random' elements are the arguments that fundamentally change the ecological landscape. These things are the punctuation in his punctuated equilibrium theory. In fact, in his last work, he saw evolution as nearly completely driven by external pressures, with a species not evolving unless some event comes along to 'pop the balloon' so to speak.

I think the issues being argued in this thread are:
#1 whether or not evolution is a chaotic process.
#2 whether any probabilistic system is random.
 
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Speaking of drunkard's walks, this interview with Stephen Jay Gould is also interesting. And speaking of how randomness rules our lives, this website by evolutionary biologist Laurence A. Moran -- author of "Evolution by Accident" -- is also on topic. Neither one appears particularly afraid to call evolution "random".
The point? Both make a concerted effort to point out that natural selection is not random.

Neither are as good at conveying the information as folks like PZ Myers who are very aware of the commonest confusion people have along with why creationist like to obfuscate understanding with the term. No evolutionist is adverse to the term random. It's the misuse designed to confuse understanding of the main part of evolution-- Darwin's theory-- the thing that shows how things look designed-- NATURAL SELECTION.

http://scienceblogs.com/pharyngula/2008/06/a_good_question.php#comments


Get it? I thought not. I'm sure your scientists would have no problems using the term random in describing the Brazil nuts on top scenario. But they would be extra careful of using the term in a way that could be all to easily extrapolated to mean the "Brazil nut plot" was likely. Get it? Or do you suck at analogies like Mijo and Jimbob?

Here's more about fabulous creationist obfuscation on this very point as if you were actually interested in what scientists are actually saying on the topic and why they would never describe evolution in the way Mijo, Behe, or Jimbob is:


http://scienceblogs.com/pharyngula/2008/06/local_boy_gets_obnoxious.php#comments

It all depends on your goal of course. If obfuscation is your goal or to make everyone aware of the randomness involved in evolution (as though that part isn't obvious)-- then be my guest.

Knock yourself out... you can use the terms and definitions that people who actually communicate to others use... or you can imagine that somehow you are doing so and that you are conveying something of value to someone other than yourself.
 
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However, if you are going to describe a mathematical model with random portions, then mathematically speaking to whole system is random.
Okay, if you want to define random to include "any model in which any portion is random", then that's your business.

But, to science, that is an incredibly useless definition. In order to render such models as more powerful tools for discovery, it seems it is better to think of them as "not entirely random".
 
The point?

What's the point of explaining it to you, since you are so obviously and willfully ignoring it.

Both make a concerted effort to point out that natural selection is not random.

That may be true, but Moran's piece in particular also made concerted effort to point out that natural selection is not the only process at work in evolution, that other processes than natural selection may be more important to the the overall process of evolution than natural selection, and that, probably most importantly of all, natural selection's being non-random does not make evolution itself non random.
 
Okay, if you want to define random to include "any model in which any portion is random", then that's your business.

But, to science, that is an incredibly useless definition. In order to render such models as more powerful tools for discovery, it seems it is better to think of them as "not entirely random".

I'm sorry but this comment seems to imply an incredible ignorance of the last 85 years of research into the stochastic modeling of evolution. For reviews of this research you should consult:

Stochastic Models of Evolution in Genetics, Ecology and Linguistics


Transition between Stochastic Evolution and Deterministic Evolution in the Presence of Selection: General Theory and Application to Virology


Note in particular how the deterministic behavior that articulett and other cherish so much can be described the limiting behaviors of the stochastic models in large populations and over long periods of time.
 
Okay, if you want to define random to include "any model in which any portion is random", then that's your business.

But, to science, that is an incredibly useless definition. In order to render such models as more powerful tools for discovery, it seems it is better to think of them as "not entirely random".

Not only is it useless, it is also wrong. Mijo conceded my counter-example; going from this point being 'non-negotiable' to negotiable. Mijo's statement only holds true insofar as all the examples that disprove his definition are ignored.
Then again that is not so different than the strategy Mijo applies to all the points he makes. So I suppose it is not surprising.
 
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Not only is it useless, it is also wrong. Mijo conceded my counter-example; going from this point being 'non-negotiable' to negotiable. Mijo's statement only holds true insofar as all the examples that disprove his definition are ignored.
Then again that is not so different than the strategy Mijo applies to all the points he makes. So I suppose it is not surprising.

Nor is it random... :)
 
Not only is it useless, it is also wrong. Mijo conceded my counter-example; going from this point being 'non-negotiable' to negotiable.

I did not actually concede your "counter-example"; I just never adequately responded to it. (Somehow I think that no response would be adequate to convince you that that you do in fact not understand the basic concepts of probability theory, because you seemed to have decided that I am a priori wrong.)

Your example is in fact a random variable, just as all measurable functions of random variables are. In essence, just because one event has a probability of 1 doesn't make the distribution non-random because other events still exist they just happen with a probability of zero.
 
I wonder if Mijo could give us a clear-cut example of how defining evolution as "entirely random" could yield more new discoveries, vs. defining it as "NOT entirely random".

He can take his time, if he needs to. I am attending a conference most of this weekend, and won't be browsing here, much, in the next few days, anyway.

Actual examples are preferred. But, hypothetical, "in principal" examples would be acceptable, as long as the point is relatively clear.
 
Natural selection takes the very best of the "random" strands of DNA and multiplies them exponentially... giving them more tickets in the winning mutation lottery to be selected in a later environment. At the same time, it immediately wipes out the most deleterious stretches of DNA so they never have a chance to mutate.

THIS is the very essence as to how things become ordered... how they appear so amazingly designed. This is not the essence of how planets and galaxies and non replicating systems get the appearance of design. And this is not random to anyone but a creationist or someone confused by a creationist.

Having random components does not a random process make.

(Wowbagger... have fun at your humanist conference... looking forward to your insights on the forum and at TAM)
 
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I wonder if Mijo could give us a clear-cut example of how defining evolution as "entirely random" could yield more new discoveries, vs. defining it as "NOT entirely random".

See, I understand that distinction you are trying to make here, but I don't find it of very much utility, to people who understand probability theory. Processes that contain random elements are by definition random. Where the idea of something being "entirely" random comes from seems to be the conflation of randomness with fairness (i.e., equiprobability).

He can take his time, if he needs to. I am attending a conference most of this weekend, and won't be browsing here, much, in the next few days, anyway.

I am also in a similar situation. I will be helping a friend move across the country so I will not be checking the forum for a about a week.
 
I did not actually concede your "counter-example"; I just never adequately responded to it. (Somehow I think that no response would be adequate to convince you that that you do in fact not understand the basic concepts of probability theory, because you seemed to have decided that I am a priori wrong.)
#1 As far as I am concerned running away from a strong objection to a fallacious claim is concession, or perhaps somewhat worse than concession. This is particularly true for you insofar as you have a habit of showing complete amnesia to the points that 'sink your battleship'.

#2 I don't think you are a priori wrong about evolution, I think you are a posteriori wrong. Insofar as science is an empirical study, your claims about evolution are proven wrong by evidence. Although, admittedly, your claims about mathematics are a priori wrong.
Speaking of false claims about mathematics....

Your example is in fact a random variable, just as all measurable functions of random variables are. In essence, just because one event has a probability of 1 doesn't make the distribution non-random because other events still exist they just happen with a probability of zero.

#1 This is the 'almost surely' business... we went over this before and you still seem to be missing the point. This claim about the possibility existing with a vanishingly small probability is only true if the function I provided( f(x)=0*x+c) involves a random variable defined over a field with an uncountably large number of elements(like the reals or the complex numbers) if the distribution is defined over a finite field or a countably infinite field(like the rationals or the natural numbers) then the probability of the outcome is exactly 0. Thus my counter example is definitely correct if defined over a finite field, like the non-negative integers modulo 7.

#2 Since evolution involves a discrete number of individuals, it will never correspond to the idealized models of the reals or the complex numbers. It will always exhibit behavior over a finite field. So your objection above, specifically doesn't apply to evolution.

#3 This ignores the fact that a probability distribution over the reals with a dirac delta in it, is not random at all, but simply not-deterministic or not probable. If a model involves a significant random variable the term that is often used technically is stochastic. Stochastic is not freely interchangeable with random. Models with random components may be Stochastic, but not all Stochastic models have random components. The components may be probabilistic, but behave in ways that deviate significantly from random.

#4 The paper you cited actually makes my point incredibly well. Stochastic Models of Evolution in Genetics, Ecology, and, Genetics, being a technical paper, takes extreme care in their use of terms. The authors call models that have significant probabilistic components stochastic. They call events that are not deterministic probabilistic and they only use random when they are talking about events that are uniformly distributed and uncorrelated.

For example:
Stochastic Models of Evolution in Genetics said:
A haploid or randomly-mating diploid population evolving this way is ofter referred to as an ideal population. In reality, individuals do not mate at random, and there is often a preference, or requirement, for mating to occur between or within different classes of individuals.

#1 They say it perfectly, a preference(or non-uniformity in choice) is a deviation from random. Game. Set. Match.

#2 The authors also make my point about genetic drift powerfully in equation 136, which describes whether a new mutation can become dominant in a population via genetic drift. What the equation shows is that the trait cannot be neutral or disadvantageous and increase in frequency via drift. It must have a selective advantage to increase in frequency. This confirms the intuition that gene frequencies will not drift without the help of selection.

#3 All the points you make, rely on somehow claiming that the statistics of a model at the limit must necessarily be random if a model has random components. The whole reason for looking at the behavior of a model at the limit is to be able to divine the regularities in the model despite any noise in the system. Your point has been been refuted dozens of times in this thread. See my example from the moments of a gas with a Boltzmann energy distribution if you are still confused about this point.
 

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