Talk:Models of DNA evolution

Update page with Lie Markov Models
I'm sorry I can do this myself at the moment, but there is a lot of excitement surrounding "Lie Markov" nucleotide models, and this page should be updated to reflect this. — Preceding unsigned comment added by 108.31.169.120 (talk) 05:48, 13 March 2024 (UTC)

HKY85 model matrix is transposed
As written, the HKY85 model matrix is the transpose of what it should be when multiplying times a column vector as introduced earlier in the page. The rate of transitions from T to A should be $$\pi_A$$, so that there is a greater chance of transitioning to a base when its frequency at equilibrium is higher. Transposing the matrix is also required to work with the statement that the rows of Q must sum to zero earlier in the page. Several of the other matrices are also transposed. If there are no objections, I'll make these changes. JeffreyBarrick (talk) 18:57, 31 October 2008 (UTC)

Yep, those were off, just fixed em! Think I got all of them.Evolvedmicrobe (talk) 03:37, 19 October 2011 (UTC)

My eyes have glazed over and I must scream
Could somebody dumb this article down, or create a more generalized version of it so that someone who doesn't have a degree in chemistry, physics or mathematics can pretend they derived some type of understanding form it? If that's too much, could someone point me in the direction of trying to understand this? I'm looking for something just a little deeper than WP's abiogenesis article.19:48, 6 December 2008 (UTC)
 * at least, could we have something in English first? I mean, I'm reading about blue-green algae and extinction events, then I jump to this article and I get a whole pile of matrixes. What gives? And why all these models? We just get the formulas duimped on us without any explanation of why these formulas. What are the formulas supposed to achieve? m.e. (talk) 16:58, 1 April 2009 (UTC)
 * Sorry for being so frank, but — what the fuck is this? — Mütze (talk) 19:56, 21 November 2010 (UTC)

I have to agree. As a quantitative geneticist, I'm somewhere in between understanding the theory of the models and completely being lost in the math, and this page is all math. Models are, indeed, commonly the relm of bioinformaticians, but less mathy biologists should be able to access them as well. A simple table describing the main differences in the models, a description of how they are nested and can be compared using log likelihood, and a list of the number of free/fixed parameters for each model would be VERY useful, I think. Firefoxx66 (talk) 10:31, 9 December 2010 (UTC)

I have to disagree. This is quite extensive math theory. When you are biologist who use math to only count some flowers on field, you just can't understand this. And this is only point of whole theory. Yeah, there could be brief interpretation for those, who don't want to go through matrix. But if you want to fully understand what going on there, you have to just study math. —Preceding unsigned comment added by 78.102.109.53 (talk) 12:50, 3 May 2011 (UTC)

MOS exists. Really.
The need for things like this edit is somewhat depressing.

WP:MOS really does exist.

So does WP:MOSMATH. Maybe missionaries from civilized countries will bring that to this article some day..... Michael Hardy (talk) 11:51, 20 October 2009 (UTC)

Deriving the dynamics of substitution
The text "Similarly, for any $$ x\ $$, let the rate of change to $$ x\ $$ be" seems to be wrong. It should say the rate of change from $$ x\ $$. Otherwise, the middle term in the following equation (after "The changes in the probability distribution...") doesn't make sense. That middle term, according to the description that follows it, is supposed to be the rate of losing existing A's. Hence the change to from above. Terrycojones (talk) 12:12, 13 August 2018 (UTC)