1. USC3002 Picturing the World Through Mathematics Wayne Lawton Department of Mathematics S14-04-04, 65162749 matwml@nus.edu.sg Theme for Semester I, 2008/09 : The Logic of Evolution, Mathematical Models of Adaptation from Darwin to Dawkins

2. Probability and Statistics play an increasingly crucial role in evolution research MOTIVATION http://www.springer.com/east/home/life+sci/bioinformatics? SGWID=5-10031-22-34952257-0 http://www-stat.stanford.edu/~susan/courses/s366/ http://findarticles.com/p/articles/mi_qa3746/is_199 904/ai_n8829021/pg_16

3. [1] Rudolph Carnap, An Introduction to the Philosophy of Science, Dover, N.Y., 1995. [2] Leong Yu Kang, Living With Mathematics, McGraw Hill, Singapore, 2004. (GEM Textbook) (1 Reasoning, 2 Counting, 3 Graphing, 4 Clocking, 5 Coding, 6 Enciphering, 7 Chancing, 8 Visualizing) MATLAB Demo Random Variables & Distributions Discuss Topics in Chap. 2-4 in [1], Chap. 1, 7 in [2]. Baye’s Theorem & The Envelope Problem, Deductive, Inductive, and Abductive Reasoning. Assign computational tutorial problems. REFERENCES

4. RANDOM VARIABLES The number that faces up on an ‘unloaded’ dice rolled on a flat surface is in the set { 1, 2, 3, 4, 5, 6 } and the probability of each number is equal and hence = 1/6 After rolling a dice, the number is fixed to those who know it but remains an unknown, or random variable to those who do not know it. Even while it is still rolling, a person with a laser sensor connected with a sufficiently powerful computer may be able to predict with some accuracy the number that will come up. This happened and the Casino was not amused !

5. MATLAB PSEUDORANDOM VARIABLES The MATLAB (software) function rand generates decimal numbers d / 10000 that behaves as if d is a random variable with values in the set {0,1,2,…,9999} with equal probability. It is a pseudorandom variable. It provides an approximation of a random variable x with values in the interval [0,1] of real numbers such that for all 0 < a < b < 1 the probability that x is in the interval [a,b] equals b-a = length of [a,b]. These are called uniformly distributed random variables.

6. PROBABILITY DISTRIBUTIONS Random variables with values in a set of integers are described by discrete distributions Uniform (Dice), Prob(x = k) = 1/6 for k = 1,…,6 Poisson Prob(x = k) = a^k exp(-a) / k! for k > -1 where k is the event that k-atoms of radium decay if a is the average number of atoms expected to decay. Binomial Prob(x = k) = a^k (1-a)^(n-k) n!/(n-k)!k! for k = 0,1,…,n where an event that has probability a occurs k times out of a maximum of n times and k! = 1*2…*(k-1)*k is called k factorial.

7. PROBABILITY DISTRIBUTIONS Random variables with values in a set of real numbers are described by continuous distributions Uniform over the interval [0,1] Gaussian or Normal here and

8. MATLAB HELP COMMAND >> help hist HIST Histogram. N = HIST(Y) bins the elements of Y into 10 equally spaced containers and returns the number of elements in each container. If Y is a matrix, HIST works down the columns. N = HIST(Y,M), where M is a scalar, uses M bins. >> help rand RAND Uniformly distributed random numbers. RAND(N) is an N-by-N matrix with random entries, chosen from a uniform distribution on the interval (0.0,1.0). RAND(M,N) is a M-by-N matrix with random entries.

9. MATLAB DEMONSTRATION 1 Why do these histograms look different ?

10. MATLAB DEMONSTRATION 2 >> x = rand(10000,1); >> hist(x,41)

11. MORE MATLAB HELP COMMANDS >> help randn RANDN Normally distributed random numbers. RANDN(N) is an N-by-N matrix with random entries, chosen from a normal distribution with mean zero, variance one and standard deviation one. RANDN(M,N) is a M-by-N matrix with random entries. >> help sum SUM Sum of elements. For vectors, SUM(X) is the sum of the elements of X. For matrices, SUM(X) is a row vector with the sum over each column.

12. MATLAB DEMONSTRATION 3 >> s = -4:.001:4; >> plot(s,exp(s.^2/2)/(sqrt(2*pi))) >> grid

13. MATLAB DEMONSTRATION 3 >> x = randn(10000,1); >> hist(x,41)

14. MATLAB DEMONSTRATION 3 >> x = rand(5000,10000); >> y = sum(x); >> hist(y,41)

15. CENTRAL LIMIT THEOREM The sum of N real-valued random variables y = x(1) + x(2) + … + x(N) will be a random variable. If the x(j) are independent and have the same distribution then as N increases the distributions of y will approach (means gets closer and closer to) a Gaussian distribution. The mean of this Gaussian distribution = N times the (common) mean of the x(j) The variance of this Gaussian distribution = N times the (common) variance of the x(j)

16. CONDITIONAL PROBABILITY Recall that on my dice the ‘numbers’ 1 and 4 are red and the numbers 2, 3, 5, 6 are blue. I roll one dice without letting you see how it rolls. What is the probability that I rolled a 4 ? I repeat the procedure BUT tell you that the number is red. What is the probability that I rolled a 4 ? This probability is called the conditional probability that x = 4 given that x is red (i.e. x in {1,4})

17. CONDITIONAL PROBABILITY If A and B are two events then event that BOTH event A and event B happen. Common sense implies the following LAW: denotes the Example Consider the roll of a dice. Let A be the event x = 4 and let B be the event x is red (= 1 or 4) Question What does the LAW say here ?

18. BAYE’s THEOREM http://en.wikipedia.org/wiki/Bayes'_theorem Prob(A) and Prob(B) are called marginal distributions. for an event A, denotes the event not A Question Why does

19. INDUCTIVE & ABDUCTIVE REASONING http://en.wikipedia.org/wiki/Inductive_reasoning Inductive reasoning is the process of reasoning in which the premises of an argument support the conclusion but do not ensure it. This is in contrast to Deductive reasoning in which the conclusion is necessitated by, or reached from, previously known facts. http://en.wikipedia.org/wiki/Abductive_reasoning The philosopher Charles Peirce introduced abduction into modern logic. In his works before 1900, he mostly uses the term to mean the use of a known rule to explain an observation, e.g., “if it rains the grass is wet” is a known rule used to explain that the grass is wet. He later used the term to mean creating new rules to explain new observations, emphasizing that abduction is the only logical process that actually creates anything new. Namely, he described the process of science as a combination of abduction, deduction and implication, stressing that new knowledge is only created by abduction. Abductive reasoning, is the process of reasoning to the best explanations. In other words, it is the reasoning process that starts from a set of facts and derives their most likely explanations.

20. Homework 4. Due Monday 15.09.08 http://www.holah.karoo.net/experimental_method.htm Carnap p. 41 [1] “One of the great distinguishing features of modern science, as compared to the science of earlier periods, is its emphasis on what is called the “experimental method”. “ Question 1. Discuss how the experimental method differs from the method of observation. Question 2. Discuss the fields of inquiry that favor the experimental methods and what fields do not and why. Question 3. Describe the Ideal Gas Law and the experimental to test it.

21. Homework 4. Due Monday 15.09.08 Question 4. The uniform distribution on [0,1] has mean ½ and variance 1/12. Use the Central Limit Theorem to compute the mean and variance of the random variable y whose histogram is shown in vufoil # 13. Question 5. I roll a dice to get a random variable x in {1,2,3,4,5,6}, then put x dollars in one envelope and put 2x in another envelope then flip a coin to decide which envelope to give you (so that you receive the smaller or larger amount with equal probability). Use Baye’s Theorem to compute the probability that you received the smaller amount CONDITIONED on YOUR FINDING THAT YOU HAVE 1,2,3,4,5,6,8,10,12 dollars. Then use these conditional probabilities to explain the Envelope Paradox.