BIOL 4753-5753
 Share
The version of the browser you are using is no longer supported. Please upgrade to a supported browser.Dismiss

View only
 
 
 
ABCDEFGHIJKLMNOPQRSTUV
1
PART I: Phylogenetic Inference
2
Week
DateLecture topicPractical topicNotes
3
119-AugIntroduction to phylogenetics and tree thinking
4
121-AugIntroduction to phylogenetics and tree thinking (cont.)
5
226-AugIntroduction to phylogenetics and tree thinking (cont.)File formats and regular expressions (RegEx)
6
228-Aug
Unix basics, remote access & running jobs in OSCER (by Dr. Henry Neeman)
7
32-SepNo class - Labor Day HolidayNo class - Labor Day Holiday
8
34-SepTree space & optimality criteria
9
49-SepTree space & optimality criteria
10
411-SepDistance methods
11
516-SepModels of molecular evolution
12
518-SepMultiple sequence alignmentMultiple sequence alignment
13
623-SepMaximum likelihood, bootstrap & hypothesis testing
14
625-SepMaximum likelihood, bootstrap & hypothesis testingML (RAXML) & bootstrap
15
730-SepModel selection; rate heterogeneityModel selection & rate heterogeneity: PartitionFinder
16
72-OctModel selection; rate heterogeneity (cont.)Model selection & rate heterogeneity: PartitionFinder
Graduate students: deadline to submit outline for final project
17
87-OctBayesian inference
18
89-OctBayesian inferenceBayesian inference and ML. Molecular clocks: BEAST tutorial
Undergraduates: deadline to send three papers for final presentation
19
914-OctMolecular clocksMolecular clocks: BEAST tutorial
20
916-OctGene trees & species treesGene trees & species trees inference
21
1021-OctMidterm exam (phylogenetic inference)
Starting Monday (12:01 am); due Sunday October 27 (11:59 pm)
22
1023-OctMidterm exam (cont.)
23
1128-OctExam revision. Gene trees & species trees (cont.)
24
PART II: Phylogenetic Comparative Methods
25
1130-Oct
R basics. Introduction to reading, writing, manipulating, and visualizing trees in R
26
124-NovIntroduction to the phylogenetic comparative method
27
126-NovPhylogenetically independent contrasts in R
28
1311-NovEstimating speciation and extinction rates using phylogenies
29
1313-NovModels of continuous trait evolution on treesEstimating speciation and extinction rates using phylogenies
30
1418-NovModels of continuous trait evolution on trees (cont.)Phylogenetic signal & fitting models of continuous trait evolution
31
1420-NovDiscrete trait evolution & ancestral state reconstructionsFitting models of discrete character evolution
32
1525-Nov
Undergrad presentations. 3:00 to 5:30 pm. All students must be present.
33
1527-NovNo class - ThanksgivingNo class - Thanksgiving
34
162-DecAncestral state reconstructions (work from home)
35
164-DecVisualizing phylogenies and comparative data in R (work from home)
36
179-DecNo class
37
1710-Dec
Graduate presentions. 4:30-6:30 pm. All students must be present.
38
1713-DecDeadline to submit term paper (11:59 pm)
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
Loading...