Recent Changes for "2009 Workshop" - Bodega Phylogenetics Wiki

2009 Workshop

2009-03-20 01:04:13

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- View photos from the 2009 workshop ["2009_Bodega_Bay_Photo_Gallery" here]!	+ View photos from the 2009 workshop ["2009 Bodega Bay Photo Gallery" here]!

2009 Workshop

CathyNewman — 2009-03-17 16:34:33

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- View photos from the 2009 workshop ["here"]!	+ View photos from the 2009 workshop ["2009_Bodega_Bay_Photo_Gallery" here]!

2009 Workshop

glor — 2009-03-16 17:17:46

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- \|\|Rich Glor\|\|University of Rochester\|\|[[MailTo(rglor AT mail DOT rochester DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|	+ \|\|["Users/glor" Rich Glor]\|\|University of Rochester\|\|[[MailTo(rglor AT mail DOT rochester DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|

2009 Workshop

glor — 2009-03-16 17:17:09

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- \|\|Bob Thomson\|\|UC-Davis\|\|[[MailTo(rcthomson AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|	+ \|\|["Users/BobThomson" Bob Thomson]\|\|UC-Davis\|\|[[MailTo(rcthomson AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|

2009 Workshop

2009-03-16 14:23:33

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- ==Thursday== - Morning session: Download ["Ecological Phylogenetics (Strauss & Burns)" phylocom and the example files.] - Afternoon session: Download ["Morphological Diversification and Rates of Evolution" brownie and the example file.] -	+ ==Gallery== + View photos from the 2009 workshop ["here"]!

2009 Workshop

BobThomson — 2009-03-15 09:25:25

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- \|\|'''Monday'''\|\|["Gene Trees/Species Trees"]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|	+ \|\|'''Monday'''\|\|["Gene Trees/Species Trees" Gene Trees/Species Trees (Shaffer)]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|

2009 Workshop

2009-03-14 14:37:10

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2009 Workshop

hbshaffe — 2009-03-14 07:48:37

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- \|\|'''Monday'''\|\|["Gene Trees/Species Trees (Shaffer)"]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|	+ \|\|'''Monday'''\|\|["Gene Trees/Species Trees"]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|

2009 Workshop

hbshaffe — 2009-03-12 19:39:22

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- \|\|'''Monday'''\|\|["Gene Trees/Species Trees"]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|	+ \|\|'''Monday'''\|\|["Gene Trees/Species Trees (Shaffer)"]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|

2009 Workshop

glor — 2009-03-12 13:14:52

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- \|\|'''Monday'''\|\|Gene Trees/Species Trees (Shaffer) (Waiting for Presentation)/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|	+ \|\|'''Monday'''\|\|["Gene Trees/Species Trees"]/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|

2009 Workshop

BobThomson — 2009-03-12 10:49:08

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony] ["Maximum Likelihood (GARLI 0.951)" and Likelihood (Pauly)] \|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony] ["Maximum Likelihood (GARLI 0.951)" and Likelihood (Pauly)] \|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|Likelihood-Bayes Battle\|\|
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- \|\|'''Tuesday'''\|\|["Comparative Methods I (Glor) 2009" Comparative Methods I (Glor)]\|\|["Comparative Methods II (Whittall) 2009" Comparative Methods II (Whittall)]\|\|\|\|	+ \|\|'''Tuesday'''\|\|["Comparative Methods I (Glor) 2009" Comparative Methods I (Glor)]\|\|["Comparative Methods II (Whittall) 2009" Comparative Methods II (Whittall)]\|\|Work on Projects\|\|

2009 Workshop

BobThomson — 2009-03-12 10:47:10

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- \|\|'''Wednesday'''\|\|["Divergence Time Estimation (Moore)"]\|\|FIELD TRIPS\|\|\|\|	+ \|\|'''Wednesday'''\|\|["Divergence Time Estimation (Moore)"]\|\|FIELD TRIPS\|\|Work on Projects\|\|
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- \|\|'''Friday'''\|\|Finish up projects & Begin Presentations\|\|More Student Presentations\|\|Free\|\|	+ \|\|'''Friday'''\|\|Finish up projects & Begin Presentations\|\|More Student Presentations\|\|Party!!\|\|

2009 Workshop

BobThomson — 2009-03-12 10:46:28

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony] ["Maximum Likelihood (GARLI 0.951)" and Likelihood] (Pauly)\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony] ["Maximum Likelihood (GARLI 0.951)" and Likelihood (Pauly)] \|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

BobThomson — 2009-03-12 10:20:27

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- Morning session: Download ["Ecological Phylogenetics (Strauss & Burns)" phylocom and example files] - Afternoon session: Download ["Morphological Diversification and Rates of Evolution" brownie and example file]	+ Morning session: Download ["Ecological Phylogenetics (Strauss & Burns)" phylocom and the example files.] + Afternoon session: Download ["Morphological Diversification and Rates of Evolution" brownie and the example file.]

2009 Workshop

BobThomson — 2009-03-12 10:20:08

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- Afternoon session: DOwnload ["Morphological Diversification and Rates of Evolution" brownie and example file]	+ Afternoon session: Download ["Morphological Diversification and Rates of Evolution" brownie and example file]

2009 Workshop

BobThomson — 2009-03-12 10:20:01

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- Afternoon session: DOwnload ["Morphological Diversification and Rates of Evolution" brownie]	+ Afternoon session: DOwnload ["Morphological Diversification and Rates of Evolution" brownie and example file]

2009 Workshop

BobThomson — 2009-03-12 10:19:43

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- Afternoon session:	+ Afternoon session: DOwnload ["Morphological Diversification and Rates of Evolution" brownie]

2009 Workshop

BobThomson — 2009-03-12 10:18:55

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	+ ==Thursday== + Morning session: Download ["Ecological Phylogenetics (Strauss & Burns)" phylocom and example files] + Afternoon session: +

2009 Workshop

BobThomson — 2009-03-12 10:17:45

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- ==For Wednesday== - Download the software and example from Brian's ["Divergence Time Estimation (Moore)" page]. - -

2009 Workshop

BobThomson — 2009-03-11 10:49:01

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- \|\|Michael Donoghue\|\|Yale University\|\|[[MailTo(michael DOT donoghue AT yale DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\|	+ \|\|Michael Donoghue\|\|Yale University\|\|[[MailTo(michael DOT donoghue AT yale DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|\|\| \|\| \|\| \|\| \|\|
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- \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'> \|\| \|\| \|\| \|\| \|\|	+ \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| \|\|

2009 Workshop

BobThomson — 2009-03-11 08:27:21

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- ==For Tuesday== - Get [http://mesquiteproject.org/mesquite/download/download.html Mesquite v.2.6] and the [http://mesquiteproject.org/pdap_mesquite/index.html PDAP] module of Mesquite - Go ["I. Getting Started with R" here] for instructions on how to download R. - Download the sample datasets from ["Basic ancestral reconstruction with parsimony & maximum likelihood in Mesquite" here], ["Ancestral reconstruction and phylogenetic signal of discrete traits in Mesquite" here], and ["Phylogenetics and Comparative Methods in R" here]. -

2009 Workshop

glor — 2009-03-10 14:57:52

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- Download the software and example from Brian's [Divergence_Time_Estimation_(Moore) page].	+ Download the software and example from Brian's ["Divergence Time Estimation (Moore)" page].

2009 Workshop

glor — 2009-03-10 14:57:16

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	+ + ==For Wednesday== + Download the software and example from Brian's [Divergence_Time_Estimation_(Moore) page].

2009 Workshop

glor — 2009-03-10 14:54:50

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- \|\|'''Monday'''\|\|["Gene Trees/Species Trees (Shaffer)"] / ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|	+ \|\|'''Monday'''\|\|Gene Trees/Species Trees (Shaffer) (Waiting for Presentation)/ ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|

2009 Workshop

BobThomson — 2009-03-10 14:40:56

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony]["Maximum Likelihood (GARLI 0.951)" and Likelihood] (Pauly)\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony] ["Maximum Likelihood (GARLI 0.951)" and Likelihood] (Pauly)\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

BobThomson — 2009-03-10 14:40:37

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony]["Maximum Likelihood (GARLI 0.951)" and Likelihood] (Pauly)\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

BobThomson — 2009-03-10 14:39:45

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)" Parsimony]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

BobThomson — 2009-03-10 14:38:59

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["PAUP, GARLI tutorial (Pauly)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP*)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

BobThomson — 2009-03-10 14:38:34

Revert to version 31.

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["PAUP, GARLI tutorial (Pauly)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

BobThomson — 2009-03-10 14:38:12

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["PAUP, GARLI tutorial (Pauly)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["Parsimony (PAUP)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

glor — 2009-03-09 18:52:41

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	+ Go ["I. Getting Started with R" here] for instructions on how to download R.
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- Go ["Phylogenetics and Comparative Methods in R" here] for instructions on how to download R.	+

2009 Workshop

glor — 2009-03-09 18:51:52

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- Download the sample dataset from ["Basic ancestral reconstruction with parsimony & maximum likelihood in Mesquite" here], ["Ancestral reconstruction and phylogenetic signal of discrete traits in Mesquite" here], and	+ Download the sample datasets from ["Basic ancestral reconstruction with parsimony & maximum likelihood in Mesquite" here], ["Ancestral reconstruction and phylogenetic signal of discrete traits in Mesquite" here], and ["Phylogenetics and Comparative Methods in R" here].

2009 Workshop

glor — 2009-03-09 18:44:48

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- Download the sample dataset from [Basic ancestral reconstruction with parsimony & maximum likelihood in Mesquite here], [Ancestral reconstruction and phylogenetic signal of discrete traits in Mesquite here], and	+ Download the sample dataset from ["Basic ancestral reconstruction with parsimony & maximum likelihood in Mesquite" here], ["Ancestral reconstruction and phylogenetic signal of discrete traits in Mesquite" here], and

2009 Workshop

glor — 2009-03-09 18:44:31

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	+ Download the sample dataset from [Basic ancestral reconstruction with parsimony & maximum likelihood in Mesquite here], [Ancestral reconstruction and phylogenetic signal of discrete traits in Mesquite here], and

2009 Workshop

glor — 2009-03-09 18:41:08

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- Go ["Phylogenetics_and_Comparative_Methods_in_R" here] for instructions on how to download R.	+ Go ["Phylogenetics and Comparative Methods in R" here] for instructions on how to download R.

2009 Workshop

glor — 2009-03-09 18:40:46

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- ==For Monday== - Go ["Generating Species Trees with BEST" here] to download BEST and associated sample files. - Go ["Biogeography (Donoghue & Smith)" here] and download the required software for the afternoon session.	+ ==For Tuesday== + Get [http://mesquiteproject.org/mesquite/download/download.html Mesquite v.2.6] and the [http://mesquiteproject.org/pdap_mesquite/index.html PDAP] module of Mesquite + Go ["Phylogenetics_and_Comparative_Methods_in_R" here] for instructions on how to download R.

2009 Workshop

BobThomson — 2009-03-09 08:25:00

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- Go ["Biogeography (Donoghue_&_Smith)" here] and download the required software for the afternoon session.	+ Go ["Biogeography (Donoghue & Smith)" here] and download the required software for the afternoon session.

2009 Workshop

BobThomson — 2009-03-09 08:20:55

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- Go ["Generating_Species_Trees_with_BEST" here] to download BEST and associated sample files. - Go ["Biogeography_(Donoghue_&_Smith)" here] and download the required software for the afternoon session.	+ Go ["Generating Species Trees with BEST" here] to download BEST and associated sample files. + Go ["Biogeography (Donoghue_&_Smith)" here] and download the required software for the afternoon session.

2009 Workshop

glor — 2009-03-09 08:02:22

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- Go ["Biogeography_(Donoghue_%26_Smith)" here] and download the required software for the afternoon session.	+ Go ["Biogeography_(Donoghue_&_Smith)" here] and download the required software for the afternoon session.

2009 Workshop

glor — 2009-03-09 08:01:35

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- Go [Generating_Species_Trees_with_BEST here] to download BEST and associated sample files. - Go [Biogeography_(Donoghue_%26_Smith) here] and download the required software for the afternoon session.	+ Go ["Generating_Species_Trees_with_BEST" here] to download BEST and associated sample files. + Go ["Biogeography_(Donoghue_%26_Smith)" here] and download the required software for the afternoon session.

2009 Workshop

glor — 2009-03-09 08:00:53

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- ==For Sunday== - Download ["PAUP, GARLI tutorial (Pauly)" Garli] and the example files before the morning session - Download [http://mrbayes.csit.fsu.edu/MrBayes MrBayes] before the afternoon session.	+ ==For Monday== + Go [Generating_Species_Trees_with_BEST here] to download BEST and associated sample files. + Go [Biogeography_(Donoghue_%26_Smith) here] and download the required software for the afternoon session.

2009 Workshop

2009-03-08 15:27:19

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- \|\|'''Sunday'''\|\|["State of the Union (Sanderson"] / ["PAUP, GARLI tutorial (Pauly)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|	+ \|\|'''Sunday'''\|\|["State of the Union (Sanderson)"] / ["PAUP, GARLI tutorial (Pauly)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\|

2009 Workshop

2009-03-08 10:48:21

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- \|\|'''Wednesday'''\|\|["Time Tree/Diversification Rates (Moore)"]\|\|FIELD TRIPS\|\|\|\|	+ \|\|'''Wednesday'''\|\|["Divergence Time Estimation (Moore)"]\|\|FIELD TRIPS\|\|\|\|
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- \|\|Brian Moore\|\|UC-Berkeley\|\|[[MailTo(brian DOT moore AT berkeley DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|	+ \|\|[http://www.phylodiversity.net/bmoore/ Brian Moore]\|\|UC-Berkeley\|\|[[MailTo(brian DOT moore AT berkeley DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|

2009 Workshop

BobThomson — 2009-03-08 10:22:11

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- \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| \|\|	+ \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'> \|\| \|\| \|\| \|\| \|\|

2009 Workshop

BobThomson — 2009-03-08 10:12:14

adding instructor availability.

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- \|\| \|\|'''Institution'''\|\|'''Email'''\|\| - \|\|Jean Burns\|\|UC-Davis\|\|[[MailTo(burns AT ucdavis DOT edu)]]\|\| - \|\|Michael Donoghue\|\|Yale University\|\|[[MailTo(michael DOT donoghue AT yale DOT edu)]]\|\| - \|\|Jonathan Eisen\|\|UC-Davis\|\|[[MailTo(jaeisen AT ucdavis DOT edu)]]\|\| - \|\|Rich Glor\|\|University of Rochester\|\|[[MailTo(rglor AT mail DOT rochester DOT edu)]]\|\| - \|\|Brian Moore\|\|UC-Berkeley\|\|[[MailTo(brian DOT moore AT berkeley DOT edu)]]\|\| - \|\|Greg Pauly\|\|UC-Davis\|\|[[MailTo(gbpauly AT ucdavis DOT edu)]]\|\| - \|\|Samantha Price\|\|UC-Davis\|\|[[MailTo(saprice AT ucdavis DOT edu)]]\|\| - \|\|Bruce Rannala\|\|UC-Davis\|\|[[MailTo(brannala AT ucdavis DOT edu)]]\|\| - \|\|Mike Sanderson\|\|University of Arizona\|\|[[MailTo(sanderm AT email DOT arizona DOT edu)]]\|\| - \|\|Brad Shaffer\|\|UC-Davis\|\|[[MailTo(hbshaffer AT ucdavis DOT edu)]]\|\| - \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\| - \|\|Phil Spinks\|\|UC-Davis\|\|[[MailTo(pqspinks AT ucdavis DOT edu)]]\|\| - \|\|Sharon Strauss\|\|UC-Davis\|\|[[MailTo(systrauss AT ucdavis DOT edu)]]\|\| - \|\|Bob Thomson\|\|UC-Davis\|\|[[MailTo(rcthomson AT ucdavis DOT edu)]]\|\| - \|\|Peter Wainwright\|\|UC-Davis\|\|[[MailTo(pcwainwright AT ucdavis DOT edu)]]\|\| - \|\|Justen Whittall\|\|Santa Clara University\|\|[[MailTo(jwhittall AT scu DOT edu)]]\|\|	+ \|\| \|\|'''Institution'''\|\|'''Email'''\|\|\|\|\|\|'''Availability'''\|\| + \|\| \|\| \|\| \|\|Sun\|\|Mon\|\|Tues\|\|Wed\|\|Thur\|\|Fri\|\|Sat\|\| + \|\|Jean Burns\|\|UC-Davis\|\|[[MailTo(burns AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\| \|\| \|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Michael Donoghue\|\|Yale University\|\|[[MailTo(michael DOT donoghue AT yale DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| + \|\|Jonathan Eisen\|\|UC-Davis\|\|[[MailTo(jaeisen AT ucdavis DOT edu)]]\|\| \|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| \|\| + \|\|Rich Glor\|\|University of Rochester\|\|[[MailTo(rglor AT mail DOT rochester DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Brian Moore\|\|UC-Berkeley\|\|[[MailTo(brian DOT moore AT berkeley DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Greg Pauly\|\|UC-Davis\|\|[[MailTo(gbpauly AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Samantha Price\|\|UC-Davis\|\|[[MailTo(saprice AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Bruce Rannala\|\|UC-Davis\|\|[[MailTo(brannala AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| \|\| \|\| + \|\|Mike Sanderson\|\|University of Arizona\|\|[[MailTo(sanderm AT email DOT arizona DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| \|\| + \|\|Brad Shaffer\|\|UC-Davis\|\|[[MailTo(hbshaffer AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\| \|\| + \|\|Phil Spinks\|\|UC-Davis\|\|[[MailTo(pqspinks AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Sharon Strauss\|\|UC-Davis\|\|[[MailTo(systrauss AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Bob Thomson\|\|UC-Davis\|\|[[MailTo(rcthomson AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Peter Wainwright\|\|UC-Davis\|\|[[MailTo(pcwainwright AT ucdavis DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| + \|\|Justen Whittall\|\|Santa Clara University\|\|[[MailTo(jwhittall AT scu DOT edu)]]\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\|<bgcolor='#65DB73'>\|\| \|\| \|\| \|\| \|\|

2009 Workshop

BobThomson — 2009-03-08 07:58:10

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	+ + ["Student Pages"]

2009 Workshop

BobThomson — 2009-03-08 07:37:28

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- Download MrBayes before the afternoon session.	+ Download [http://mrbayes.csit.fsu.edu/MrBayes MrBayes] before the afternoon session.

2009 Workshop

BobThomson — 2009-03-08 07:36:38

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- Download MrBayes and the example files before the afternoon session.	+ Download MrBayes before the afternoon session.

2009 Workshop

BobThomson — 2009-03-08 07:35:52

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	+ ==For Sunday== + Download ["PAUP, GARLI tutorial (Pauly)" Garli] and the example files before the morning session + Download MrBayes and the example files before the afternoon session. +

2009 Workshop

2009-03-07 12:18:40

Upload of file Brownie.zip.

2009 Workshop

BobThomson — 2009-03-07 08:11:09

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- '''Garli v. 0.951''' http://www.bio.utexas.edu/faculty/antisense/garli/Garli.html	+

2009 Workshop

GregPauly — 2009-03-07 01:24:44

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- '''Garli v 0.951''' http://www.bio.utexas.edu/faculty/antisense/garli/Garli.html	+ '''Garli v. 0.951''' http://www.bio.utexas.edu/faculty/antisense/garli/Garli.html

2009 Workshop

GregPauly — 2009-03-07 01:23:44

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-	+ '''Garli v 0.951''' http://www.bio.utexas.edu/faculty/antisense/garli/Garli.html

2009 Workshop

BobThomson — 2009-03-05 14:35:44

updating schedule

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- \|\|'''Wednesday'''\|\|["Ecological Phylogenetics (Strauss & Burns)"]\|\|FIELD TRIPS\|\|\|\| - \|\|'''Thursday'''\|\|["Time Tree/Diversification Rates (Moore)"]\|\|["Morphological Diversification (Wainwright & Price)"]\|\|Work on Projects\|\|	+ \|\|'''Wednesday'''\|\|["Time Tree/Diversification Rates (Moore)"]\|\|FIELD TRIPS\|\|\|\| + \|\|'''Thursday'''\|\|["Ecological Phylogenetics (Strauss & Burns)"]\|\|["Morphological Diversification (Wainwright & Price)"]\|\|Work on Projects\|\|

2009 Workshop

BobThomson — 2009-03-03 19:12:43

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- \|\|Michael Donaghue\|\|Yale University\|\|[[MailTo(michael DOT donaghue AT yale DOT edu)]]\|\|	+ \|\|Michael Donoghue\|\|Yale University\|\|[[MailTo(michael DOT donoghue AT yale DOT edu)]]\|\|

2009 Workshop

BobThomson — 2009-03-01 21:00:40

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- '''Brownie''' http://www.brianomeara.info/brownie	+

2009 Workshop

2009-02-27 15:27:50

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	+ '''Brownie''' http://www.brianomeara.info/brownie

2009 Workshop

2009-02-26 10:00:11

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- \|\|'''Monday'''\|\|["Gene Trees/Species Trees (Shaffer)"] / ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donaghue & Smith"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|	+ \|\|'''Monday'''\|\|["Gene Trees/Species Trees (Shaffer)"] / ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donoghue & Smith)"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\|

2009 Workshop

BobThomson — 2009-02-18 11:04:59

add the quickstart guide

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	+ + + =Wiki Editing= + [[Include(Wiki Quickstart)]]

2009 Workshop

BobThomson — 2009-02-18 10:57:30

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- \|\|'''Tuesday'''\|\|["Comparative Methods I (Glor)"]\|\|["Comparative Methods II (Whittall)"]\|\|\|\|	+ \|\|'''Tuesday'''\|\|["Comparative Methods I (Glor) 2009" Comparative Methods I (Glor)]\|\|["Comparative Methods II (Whittall) 2009" Comparative Methods II (Whittall)]\|\|\|\|

2009 Workshop

BobThomson — 2009-02-18 10:56:21

add instructor list

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	+ + + =2009 Instructors= + \|\| \|\|'''Institution'''\|\|'''Email'''\|\| + \|\|Jean Burns\|\|UC-Davis\|\|[[MailTo(burns AT ucdavis DOT edu)]]\|\| + \|\|Michael Donaghue\|\|Yale University\|\|[[MailTo(michael DOT donaghue AT yale DOT edu)]]\|\| + \|\|Jonathan Eisen\|\|UC-Davis\|\|[[MailTo(jaeisen AT ucdavis DOT edu)]]\|\| + \|\|Rich Glor\|\|University of Rochester\|\|[[MailTo(rglor AT mail DOT rochester DOT edu)]]\|\| + \|\|Brian Moore\|\|UC-Berkeley\|\|[[MailTo(brian DOT moore AT berkeley DOT edu)]]\|\| + \|\|Greg Pauly\|\|UC-Davis\|\|[[MailTo(gbpauly AT ucdavis DOT edu)]]\|\| + \|\|Samantha Price\|\|UC-Davis\|\|[[MailTo(saprice AT ucdavis DOT edu)]]\|\| + \|\|Bruce Rannala\|\|UC-Davis\|\|[[MailTo(brannala AT ucdavis DOT edu)]]\|\| + \|\|Mike Sanderson\|\|University of Arizona\|\|[[MailTo(sanderm AT email DOT arizona DOT edu)]]\|\| + \|\|Brad Shaffer\|\|UC-Davis\|\|[[MailTo(hbshaffer AT ucdavis DOT edu)]]\|\| + \|\|Stephen Smith\|\|Nescent\|\|[[MailTo(sasmith AT nescent DOT org)]]\|\| + \|\|Phil Spinks\|\|UC-Davis\|\|[[MailTo(pqspinks AT ucdavis DOT edu)]]\|\| + \|\|Sharon Strauss\|\|UC-Davis\|\|[[MailTo(systrauss AT ucdavis DOT edu)]]\|\| + \|\|Bob Thomson\|\|UC-Davis\|\|[[MailTo(rcthomson AT ucdavis DOT edu)]]\|\| + \|\|Peter Wainwright\|\|UC-Davis\|\|[[MailTo(pcwainwright AT ucdavis DOT edu)]]\|\| + \|\|Justen Whittall\|\|Santa Clara University\|\|[[MailTo(jwhittall AT scu DOT edu)]]\|\|

2009 Workshop

BobThomson — 2009-02-18 10:37:52

setting up 2009 page

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	+ [[anchor(2009 Schedule)]] + =Schedule= + \|\|<tableborder="1" tablewidth="70%" rowbgcolor="#FFFFE0" align="center">\|\|'''Morning'''\|\|'''Afternoon'''\|\|'''Evening'''\|\| + \|\|'''Saturday'''\|\|<#E0E0FF>\|\|Arrivals\|\|Setup ["Student Projects"]\|\| + \|\|'''Sunday'''\|\|["State of the Union (Sanderson"] / ["PAUP, GARLI tutorial (Pauly)"]\|\|["Bayesian Phylogenetics (Rannala) 2009" Bayesian Phylogenetics (Rannala)] / ["MrBayes Tutorial (Spinks)"]\|\|\|\| + \|\|'''Monday'''\|\|["Gene Trees/Species Trees (Shaffer)"] / ["Species Tree Methods (Thomson)"]\|\|["Biogeography (Donaghue & Smith"]\|\|["Phylogenomics (Eisen) 2009" Phylogenomics (Eisen)]\|\| + \|\|'''Tuesday'''\|\|["Comparative Methods I (Glor)"]\|\|["Comparative Methods II (Whittall)"]\|\|\|\| + \|\|'''Wednesday'''\|\|["Ecological Phylogenetics (Strauss & Burns)"]\|\|FIELD TRIPS\|\|\|\| + \|\|'''Thursday'''\|\|["Time Tree/Diversification Rates (Moore)"]\|\|["Morphological Diversification (Wainwright & Price)"]\|\|Work on Projects\|\| + \|\|'''Friday'''\|\|Finish up projects & Begin Presentations\|\|More Student Presentations\|\|Free\|\| + \|\|'''Saturday'''\|\|Pack up and go home\|\|<#E0E0FF> \|\|<#E0E0FF> \|\| + + =Course Materials= + [[Include(2009 Course Materials)]]