Older posts

Learning Jekyll 30 Dec 2012

Notes 27 Dec 2012

Notes 23 Dec 2012

Progress Summary 21 Dec 2012

Results Comparing Gp To Parametric 20 Dec 2012

Exploring Gp Model Space 19 Dec 2012

Random_ews_example 17 Dec 2012

Nonparametric Bayes Comparisons 15 Dec 2012

Nonparametric Bayes Notes 11 Dec 2012

Prior Distributions For Tgp Mcmc 10 Dec 2012

Github Issues Tracker: The Perfect Research Todo List 06 Dec 2012

Notes 05 Dec 2012

Tgp Mcmc For Gaussian Processes 04 Dec 2012

Figures 3 And 4 For Policycosts 03 Dec 2012

Note On Notebook Figures 30 Nov 2012

early results in nonparametric-bayes approaches to optimal policy 28 Nov 2012

Policy Costs Work 27 Nov 2012

Citing Lab Notebook Entries 23 Nov 2012

Notes 22 Nov 2012

Notes 21 Nov 2012

Sequential Updating 19 Nov 2012

Multiple uncertainty corrected 16 Nov 2012

Notes 15 Nov 2012

Better Tagging Practices 09 Nov 2012

Notes 08 Nov 2012

Notes 06 Nov 2012

Altmetrics Conference 03 Nov 2012

Multiple Uncertainty Corrections 01 Nov 2012

Notes 31 Oct 2012

Notes 29 Oct 2012

Stochastic Dynamic Programming With Gaussian Process Approx 25 Oct 2012

Multiple Uncertainty Value Function Iteration 24 Oct 2012

Evolutionary Covariance 24 Oct 2012

Semantic Markup Examples For The Lab Notebook 23 Oct 2012

Gaussian process inference on sample functions 23 Oct 2012

Comparing numerical methods 22 Oct 2012

Notes 17 Oct 2012

Basic regression in Gaussian processes 17 Oct 2012

Gaussian processes 16 Oct 2012

Semantic Lab Notebook 14 Oct 2012

Notes 11 Oct 2012

My Prosecutor's Fallacy paper and other recent warning signals literature 10 Oct 2012

Data Management Plan 09 Oct 2012

Automated feeds in notebook entries 05 Oct 2012

Solarized Colors with Twitter-Bootstrap? 02 Oct 2012

Multiple Uncertainty 01 Oct 2012

Welcome to my Lab Notebook - Reloaded 28 Sep 2012

Migrating Oww Posts To Jekyll 27 Sep 2012

Migrating From Wordpress To Jekyll 19 Sep 2012

Analytic Solution To Multiple Uncertainty 14 Sep 2012

Notes 12 Sep 2012

Esa Changes Arxiv Policy Following Community Comments 05 Sep 2012

Notes 04 Sep 2012

Notes 23 Aug 2012

Warning Signals In Management 22 Aug 2012

Revisions on Prosecutors Fallacy 22 Aug 2012

Notes 20 Aug 2012

Esa 2012 Conference 10 Aug 2012

Deviations from S = D 30 Jul 2012

Csgf Conference 27 Jul 2012

Notes 23 Jul 2012

Evolution and iEvobio conference notes 09 Jul 2012

Evolution 2012 Conference, Day 1 08 Jul 2012

Notes 04 Jul 2012

wrightscape / release of constraint 03 Jul 2012

varying recruitment function, noise form, and harvesting cost 02 Jul 2012

Progress this week, by project 29 Jun 2012

Ievobio Lightning Talk Proposal 24 Jun 2012

Notes on value of information runs with uniform noise 22 Jun 2012

Notes 21 Jun 2012

the week so far 19 Jun 2012

Policy functions and value functions under multiple uncertainty 13 Jun 2012

Notes 08 Jun 2012

knitcitations 30 May 2012

Exploring Jekyll layout 26 May 2012

Limits to the detection of early warning signals 21 May 2012

notes 18 May 2012

Value of information, cost of bias 16 May 2012

Notes 15 May 2012

notes 14 May 2012

Prosecutor's fallacy notes 12 May 2012

Computing the value of information in management of a stochastic resource 11 May 2012

Notes 10 May 2012

Infering Partially Observable Markov Processes with Iterative Particle Filtering 09 May 2012

Data to Knowledge Day II and other notes 08 May 2012

Data to Knowledge Day 1 07 May 2012

My research workflow, based on Github 06 May 2012

Notes 04 May 2012

Testing out a Jekyll-based notebook 03 May 2012

Notes 03 May 2012

Stochastic policy costs 02 May 2012

Jekyll vs Wordpress 01 May 2012

Additional sources of noise (Sethi 2005) 30 Apr 2012

Project tracking (Evolution) 27 Apr 2012

Project tracking (Ecology) 27 Apr 2012

2012-04-20 26 Apr 2012

Notes 25 Apr 2012

Catching up 19 Apr 2012

Monday / Tuesday 10 Apr 2012

Writing reproducibly in the open with knitr 07 Apr 2012

Friday 06 Apr 2012

Jordan's bigdata talk in Math/Stats series 05 Apr 2012

Monday/Tuesday 03 Apr 2012

Relevant initiatives from today's Big Data press release 29 Mar 2012

Data to Knowledge Conference, UC Berkeley: application 29 Mar 2012

Tuesday: pandoc citations notes, various 27 Mar 2012

Active adaptive management solutions: Belief SDP 26 Mar 2012

Citations in markdown using knitr 24 Mar 2012

Robust control & uncertainty - reading notes 22 Mar 2012

Policy costs to changing mangement, TP 1b: Apples to Apples 21 Mar 2012

knitr, github, and a new phase for the lab notebook 21 Mar 2012

Tuesday: active adaptive management, a first solution 20 Mar 2012

Friday: some random notes 20 Mar 2012

Citing R packages 20 Mar 2012

Monday: treebase manuscript writing 19 Mar 2012

PDG Control Day 1 goals by training problem 13 Mar 2012

PDG Control, Training Problem 2 update to group 13 Mar 2012

Parameter uncertainty in stochastic control problems 11 Mar 2012

Alex Pfaff seminar, meeting 09 Mar 2012

Stability analysis on fished and unfished dynamics. 06 Mar 2012

Tuesday 06 Mar 2012

Monday 05 Mar 2012

Thursday, Friday, Saturday 03 Mar 2012

Warning Signals in Fish Collapse 28 Feb 2012

Knitr with flickr and wordpress 28 Feb 2012

Using knitr and RWordPress to publish results directly from R 27 Feb 2012

Monday 27 Feb 2012

Visuals for Communicating Uncertainty 24 Feb 2012

ESA 2012 Abstract 23 Feb 2012

Stochastic optimization 22 Feb 2012

Wednesday 22 Feb 2012

Tues: Research, seminar (managing for resilience), talk (future of libraries), etc... 21 Feb 2012

finer sampling in prosecutor's fallacy 20 Feb 2012

prosecutor's fallacy initial look 16 Feb 2012

Squiggles 16 Feb 2012

getting signal from autocorrelation 15 Feb 2012

Further examples for appendices 14 Feb 2012

Monday 13 Feb 2012

Sunday 12 Feb 2012

Saturday: projects, reading, markdown plugins 12 Feb 2012

Elegant & fast data manipulation with data.table 12 Feb 2012

Thursday: writing; some latexdiff notes 10 Feb 2012

UC Davis graduate student symposium proposal 08 Feb 2012

Some Collaborative Tools for Science 06 Feb 2012

Different ways of visualizing distribution overlap 03 Feb 2012

Thursday 02 Feb 2012

Journey to freedom - a code's tale of open source license migration 31 Jan 2012

Monday 30 Jan 2012

PDG Control Training Problem II update 24 Jan 2012

Tuesday 24 Jan 2012

Friday (lab group meeting notes) 20 Jan 2012

Is your phylogeny informative? 19 Jan 2012

Wednesday -- meetings 18 Jan 2012

Are open lab notebooks considered prior publication? 16 Jan 2012

Forage Fish course plan 12 Jan 2012

Resilience seminar course plan 10 Jan 2012

Monday - Sweave workflow 09 Jan 2012

Optimal policy with assymetric costs to changing harvest quotas 06 Jan 2012

wrightscape examples 04 Jan 2012

Tuesday: pmc package, latex to word attempts 03 Jan 2012

Monday 12 Dec 2011

Better dynamic documents (Sweave) with syntax highlighting, caching, etc 12 Dec 2011

Some Notes on Open Notebooks, Open peer review practices. 11 Dec 2011

Friday 09 Dec 2011

Thursday 08 Dec 2011

Wednesday - wrightscape runs and various other things 07 Dec 2011

Optimal control -- costs to policy shifts 07 Dec 2011

Tuesday -- two insights 06 Dec 2011

Monday - wrightscape meetings, PDG meeting 05 Dec 2011

More labrid plots 05 Dec 2011

Release of constraint 04 Dec 2011

Friday - updated wrightscape results - simulated examples 02 Dec 2011

Thrusday - corrected calculation, implementing. 01 Dec 2011

Wednesday - various logistics, then checking likelihood calculation 30 Nov 2011

Tuesday debugging 29 Nov 2011

Monday: submodels for full traits 28 Nov 2011

Handling other sources of noise 28 Nov 2011

Friday: wrightscape, ggplot, wp memory 25 Nov 2011

Getting the right distributions 23 Nov 2011

some configuration notes: RStudio setup, syntax highlighting in sweave 22 Nov 2011

Friday 18 Nov 2011

Steve Pacala - Storer lecture 17 Nov 2011

wrightscape and sensitivity to initial conditions 17 Nov 2011

Tues: Sources of stochastic variation in optimal control 15 Nov 2011

non-optimal outcomes of optimal solutions 12 Nov 2011

Wainwright Retreat to Hastings Reserve 12 Nov 2011

Thursday 10 Nov 2011

Auteur plots for reef fish jaws and monkey brains -- needs tweaking 10 Nov 2011

Parallel hpc on clusters in R, MPI 10 Nov 2011

Crashing stocks and optimal harvesting effort on Allee effects 09 Nov 2011

SDP solution for allee model 08 Nov 2011

Sunday 06 Nov 2011

Sparkleshare configuration 04 Nov 2011

Friday's reading 04 Nov 2011

Stochastic Optimal Control 02 Nov 2011

server file management from bowser: ajaxplorer, mollify 01 Nov 2011

PDG Control Conference Call 01 Nov 2011

Training Problem 2 update 01 Nov 2011

Labrids & Parrotfish, method1 01 Nov 2011

Monday: openfisheries & ggplot 31 Oct 2011

Optimal Control examples continued: Bellman, Dynamic Programming 28 Oct 2011

Optimal control sample problems (Mostly continuous time by Pontryagin principle) 27 Oct 2011

Labrid submodels 26 Oct 2011

Monday, misc notes 26 Oct 2011

Tuesday notes: package work mostly. 25 Oct 2011

treebase package on cran 25 Oct 2011

Training problem 2: the economist's problem statement 24 Oct 2011

Friday: Optimal Control 21 Oct 2011

Thursday - some parrotfish & labrid runs on method2 20 Oct 2011

Optimal Control Exploration 19 Oct 2011

Mathematical Elements of Attack Risk Analysis for Mountain Pine tribolium 18 Oct 2011

Algorithms Group: Literate programming 17 Oct 2011

Friday, more runs 17 Oct 2011

Thursday, Fisheries course 13 Oct 2011

Wednesday 12 Oct 2011

rfishbase Tutorial - updated & extended 12 Oct 2011

Loo Botsford, CPB seminar 11 Oct 2011

Algorithms Group, HMM meets EM 10 Oct 2011

Wednesday - forage fish & cascades 05 Oct 2011

Tuesday 04 Oct 2011

Friday, wordpress backups, pmc edits 30 Sep 2011

Thursday 29 Sep 2011

Wednesday - Berkeley visits 28 Sep 2011

Tuesday - Berkeley visits 27 Sep 2011

Monday 26 Sep 2011

Saturday 24 Sep 2011

Friday: ropensci, manuscript edits 23 Sep 2011

Thursday 22 Sep 2011

Wednesday 21 Sep 2011

Van Kampen Expansion and Stochastic population dynamics 21 Sep 2011

Colored Noise Some Classic Results In Ecology 21 Sep 2011

Monday 19 Sep 2011

NIMBioS PDG Control: Thursday 15 Sep 2011

NIMBioS PDG group, Tasks 15 Sep 2011

Training Problem II 14 Sep 2011

NIMBioS PDG Control: Wednesday 14 Sep 2011

NIMBioS PDG Control, Tuesday 13 Sep 2011

Pretty Darn Good Control Working Group 12 Sep 2011

Likelihood expressions for branching processes 10 Sep 2011

How google views me: by search terms or citation counts? 09 Sep 2011

discriminating early bursts 08 Sep 2011

memory management, cron 07 Sep 2011

Wednesday 07 Sep 2011

rfishbase demo: Are there more Goby or Labrid species on reefs? 02 Sep 2011

Thursday Reading 01 Sep 2011

Wednesday 31 Aug 2011

Tuesday 30 Aug 2011

Algorithms group: Hidden Markov Models 29 Aug 2011

Monday: scaling wrightscape examples 29 Aug 2011

Sunday: scaling, runs 28 Aug 2011

Saturday: working on computational scaling, ion, etc 27 Aug 2011

rfishbase and some taxonomy in R with taxize 26 Aug 2011

FishBASE from R: some XML parsing 26 Aug 2011

DataCite Day 2 25 Aug 2011

DataCite Day 1 24 Aug 2011

Tuesday: rfishbase, Rmpi, manuscripts, ... 23 Aug 2011

Academic Year 2011 Summary 21 Aug 2011

Thursday: reviewing edits, fishbase, computers. 18 Aug 2011

Wednesday: migrating codes into MPI 17 Aug 2011

Wrightscape: a brief tutorial 17 Aug 2011

Tuesday: 16 Aug 2011

Monday: Evolution manuscript revisions; early burst models, etc 16 Aug 2011

Saturday: Post ESA, NSF Intersections post-doc? 13 Aug 2011

ESA Friday 12 Aug 2011

ESA Thursday 11 Aug 2011

ESA Wednesday 10 Aug 2011

ESA Tuesday 09 Aug 2011

Monday: ESA Conference 08 Aug 2011

Saturday: Fisheries Data Survey, Warning Signals 30 Jul 2011

Friday: ESA Practice Talk 29 Jul 2011

Wednesday: ESA presentation, manuscript/appendix edits 27 Jul 2011

Tues: ESA presentation 26 Jul 2011

Monday: Algorithms Discussion Group, EM finished 25 Jul 2011

CSGF Conference Notes 24 Jul 2011

CSGF 2010 Computing Practices Survey Summary 24 Jul 2011

Showcasing the latest phylogenetic methods: AUTEUR 20 Jul 2011

Sunday: Warning Signals 17 Jul 2011

The Case for Better Data Citation Practices? 14 Jul 2011

UC Davis Student Assembled Panel on Data Management Issues 13 Jul 2011

141 scientists can't be wrong? 08 Jul 2011

Friday: writing post-doc applications 08 Jul 2011

Thursday: sending off paper draft, starting applications 07 Jul 2011

Segue: Easy cloud hpc in R, now with custom packages 07 Jul 2011

Exact Simulation by the Gillespie Algorithm 06 Jul 2011

Open F1000 reviews? 04 Jul 2011

Monday: Warning Signals Manuscript 27 Jun 2011

#ievobio Day 2 22 Jun 2011

Evolution Day 4 / #ievobio Day 1 21 Jun 2011

Evolution Day 3 20 Jun 2011

Slides from my talk at Evolution 2011 20 Jun 2011

Evolution Day 2 19 Jun 2011

Evolution Conference Day 1 18 Jun 2011

Friday: more labrid & parrotfish wrightscape examples 17 Jun 2011

Wrightscape labrid/parrotfish results; Evolution pres 16 Jun 2011

Wednesday MCMC and MLEs for wrightscape 15 Jun 2011

Tuesday - Evolution/wrightscape talk & sundry 14 Jun 2011

EM Algorithm 13 Jun 2011

Monday - 13 Jun 2011

Sunday 12 Jun 2011

Friday 10 Jun 2011

Workflows that Work: making it "easy enough" 10 Jun 2011

mcmc and bootstrapped likelihood runs on parrotfish tree 09 Jun 2011

Wednesday: Simulated model fit analysis on wrightscape, parrotfish tree 08 Jun 2011

Tuesday: Parrotfish/wrightscape runs and code modification 07 Jun 2011

Parrotfish in wrightscape 06 Jun 2011

Sunday -- warning signals manuscript (mostly) 05 Jun 2011

Saturday: git with latexdiff, TreeBASE and PMC package updates, bounds on lambda 04 Jun 2011

Friday 03 Jun 2011

Thursday: Warning Signals 02 Jun 2011

Tuesday: PMC, confidence intervals; screen code-tricks 31 May 2011

Monday 30 May 2011

Sunday 29 May 2011

Matt Potts: Conserving Diversity in Tropical Landscapes 27 May 2011

Thursday Meetings: Duncan; Alan 26 May 2011

Wednesday 25 May 2011

Tuesday 24 May 2011

Monday: some code-tricks, Algorithms group planning 23 May 2011

Sunday 22 May 2011

End of NCEAS & the legacy of synthetic data 22 May 2011

Algorithms group: MCMCMC 19 May 2011

Thursday 19 May 2011

Birth-death Tutorial for PBG Core 18 May 2011

Tuesday: Parrotfish results, MCMCMC testing, APIs 17 May 2011

TreeBASE in R: a first tutorial 16 May 2011

MathJax the smart way: Child Themes 16 May 2011

Thursday: Fun with databases continued 12 May 2011

Wednesday: Treebase 11 May 2011

Interfaces for databases: TreeBASE, Dryad, DataONE 10 May 2011

Monday: meetings, notebook 09 May 2011

Sunday: a few Treebase R package updates 08 May 2011

Building a semantic notebook 08 May 2011

Reproducible Research, Large data sets, and SI2 06 May 2011

Mendeley API in R 06 May 2011

Thursday: parrotfish analysis 05 May 2011

Weds: Parrotfish data set analysis 04 May 2011

Algorithms Discussion Group: MCMC 04 May 2011

Tuesday: phylogenetics- wrightscape coding 03 May 2011

treeBASE R interface: proposal for #iEvoBio 03 May 2011

Monday 03 May 2011

Friday: Notes on Labrids, notes on Transforms and size-corrections 29 Apr 2011

Reading Notes, presentation prep, treebase error handling 28 Apr 2011

Wednesday 27 Apr 2011

Accessing phylognenies in TreeBASE from R 26 Apr 2011

TreeBASE interface continued... 25 Apr 2011

wrightscape profiling 24 Apr 2011

Release of constraint in labrids? 22 Apr 2011

Wednesday 20 Apr 2011

Tuesday: Reading and thoughts 19 Apr 2011

Algorithms Discussion Group: algorithms Continued 18 Apr 2011

TreePar: changing rates of evolution 17 Apr 2011

Friday 16 Apr 2011

Tuesday: manuscript and appendix edits 12 Apr 2011

A bit of work on my socialR package for reproducible research 12 Apr 2011

Monday: algorithms Meeting 11 Apr 2011

Sunday: Warning signals edits continue 11 Apr 2011

TreeBase: exploratory exercises in database-driven phylogenetics 08 Apr 2011

Some reproducible research practices in journals 08 Apr 2011

Steve Ellner's seminar 07 Apr 2011

Warning Signals - Manuscript touch-ups 06 Apr 2011

Comparative methods paper status/to-do 06 Apr 2011

Updates to socialR package 05 Apr 2011

evolution manuscript revisions 04 Apr 2011

A few large data problems in Ecology & Evolution 31 Mar 2011

Brian O'Meara discusses new algorithms approaches on Phylo 30 Mar 2011

Tuesday, simulations & appendix 29 Mar 2011

Monday, appendices continue... 28 Mar 2011

Sunday -- edits and appendices 27 Mar 2011

Friday 25 Mar 2011

Thursday 24 Mar 2011

Data Management Workshop at UC Davis Center for Population Biology: Video archive 24 Mar 2011

Wednesday 23 Mar 2011

Monday -- Edits and organization 22 Mar 2011

Sunday - manuscript and simulations 21 Mar 2011

Challenges with Collaboration in Open Science 21 Mar 2011

Warning Signals examples and tracking graphs 19 Mar 2011

Approximate Bayesian Computing (algorithms) methods 19 Mar 2011

Wednesday 16 Mar 2011

Tuesday 15 Mar 2011

Model identifiability in phylogenetic inference GTR+I+G 15 Mar 2011

Peter's talk 14 Mar 2011

Warning Signals, Monday 14 Mar 2011

Warning signals: summary stats vs likelihood on real and simulated data 11 Mar 2011

Numerical challenges in likelihood estimation of time-dep OU models 10 Mar 2011

Warning Signals data examples 09 Mar 2011

Bodega evolution Tutorial: behind the scenes difficulties in R packages 07 Mar 2011

Warning Signals: Comparing Methods on Climate Data 01 Mar 2011

Warning Signals on Real data continued 28 Feb 2011

Warning Signals on Real Data? 27 Feb 2011

Is BM nested in OU? Understanding likelihoods of ouch 25 Feb 2011

Phylo: Luke Harmon 25 Feb 2011

ESA 2011 Abstract: Limits to Detection of Early Warning Signals 23 Feb 2011

Monday: Writing, Mendeley groups, Notebook plugin tweaks 21 Feb 2011

Bodega evolution Workshop: Continuous Characters R session planning 18 Feb 2011

Friday 18 Feb 2011

Thursday 17 Feb 2011

Weds & Framing warning signals manuscript 16 Feb 2011

Citation tools & Future of Publishing 16 Feb 2011

Data Mangement on UC3 Merritt Repository 16 Feb 2011

Tuesday 15 Feb 2011

Monday 14 Feb 2011

Thursday 10 Feb 2011

Phylogenetic Monte Carlo for the Laser package 09 Feb 2011

Why ONS? From a discussion with friends 08 Feb 2011

Notes during revisions on phylogenetics manuscript 08 Feb 2011

Warning signals & hpc 04 Feb 2011

Progress on warning signals 03 Feb 2011

To podcast or not to podcast university lectures 01 Feb 2011

The Future of Data: Plans for a UC Davis workshop 01 Feb 2011

Warning signals: Indicators vs Likelihood continued 31 Jan 2011

more Phylogenetic signal metrics & Brownie comparison 31 Jan 2011

Notes on Bokma 2010: evolution in drifts and jumps 31 Jan 2011

Warning signals of differing stregths by likelihood and by indicator 28 Jan 2011

Phylogenetic Signal metrics 28 Jan 2011

Warning signals vs model choice 27 Jan 2011

McElreath: A Bayesian approach to hierarchical modeling, using R to build our own estimator from scratch 26 Jan 2011

Intro Ecology Lecture at University of the Pacific 25 Jan 2011

McElreath Hierarchical Models 24 Jan 2011

Felsenstein (web) seminar 24 Jan 2011

Shape as well as size influence power of phylogeny 21 Jan 2011

Estimating phylogenetic signal (lambda) on large trees 20 Jan 2011

Robert Hijmans on Models to predict sp response to climate change 19 Jan 2011

Reflections from #scio11: Saturday's Open Science Track 15 Jan 2011

evolution- wrightscape 11 Jan 2011

Warning Signals, Power and Sufficient Statistics 10 Jan 2011

Phylo Monte Carlo for diversification rates 09 Jan 2011

Two routes to adaptive branching 06 Jan 2011

Finishing up my #SICB Presentation 02 Jan 2011

Comparative evolution: Is the data informative? 31 Dec 2010

Stochastic limits to evolutionary branching 30 Dec 2010

Open Notebook Science Abstract 30 Dec 2010

Parameter exploration in adaptive dynamics branching 30 Dec 2010

adaptive-dynamics Simulations 29 Dec 2010

DoE renewal and a year in review 23 Dec 2010

Writing, Cloud Computing, and #scio11 23 Dec 2010

Sun: Visualizing my coding over the past year 19 Dec 2010

Thurs: writing section on comparing to AIC 16 Dec 2010

Weds: Example sets & more EC2 15 Dec 2010

Tues: evolution thoughts while writing... 14 Dec 2010

Back to Writing 13 Dec 2010

Citations 10 Dec 2010

socialR: Reproducible Research & Notebook integration with R 10 Dec 2010

Warning signals manuscript 10 Dec 2010

Exploring Power in Warning Signals 09 Dec 2010

Practice SICB Presentation 08 Dec 2010

Mapping out SICB Presentation: Is your phylogeny informative? 07 Dec 2010

follow up from Fri discussions: Revisiting post-predictive evaluation 06 Dec 2010

Identifying Warning Signals 04 Dec 2010

Thoughts on the New Policies for Data Archiving at NSF and in Common Journals 03 Dec 2010

CPB : David Collar 30 Nov 2010

Tues: Fitting the limiting OU models to each bifurcation 30 Nov 2010

Further treatment of the limiting models 29 Nov 2010

Challenges in estimating phylogenetic signal 28 Nov 2010

Likelihoods for quadratic models cont 28 Nov 2010

Implementing Likelihoods for quadratic models 27 Nov 2010

Tweets from an Ecology Field class 24 Nov 2010

Warning signals: Likelihoods Straight-up 24 Nov 2010

Power in simple tests 22 Nov 2010

Two questions 21 Nov 2010

Making R twitter? 21 Nov 2010

Sat: evolution -- porting tree transformations to OUCH? 20 Nov 2010

Fri: extending Geiger to Monte Carlo method 19 Nov 2010

Thurs: evolution likelihood 18 Nov 2010

Weds 18 Nov 2010

Tues seminar 16 Nov 2010

evolution today: Discussion groups, writing, etc 15 Nov 2010

Thursday: Post-predictive verification exploration; writing and figures 11 Nov 2010

evolution statistics 11 Nov 2010

Tuesday - SDEs then back to phylogenetics 10 Nov 2010

Monday and some phylogenetics 08 Nov 2010

Welcome to my Lab Notebook 07 Nov 2010

Friday: Evolution reading, writing 05 Nov 2010

Thursday 05 Nov 2010

Getting the details right on the Fourier Transform approach to likelihood 03 Nov 2010

Reviews, organization, rewrites 02 Nov 2010

Short note: Trait diversification rates controlled by other traits 29 Oct 2010

A new twist on the approach 28 Oct 2010

Red Noise (aside exercise) 27 Oct 2010

Warning Signals -- Where are we now? 27 Oct 2010

Correcting for the mean dynamics 26 Oct 2010

Wrong picture, wrong model: why warning signals don't look like rare events 25 Oct 2010

Warning Signals 21 Oct 2010

Spatial Warning Signals, power, etc 20 Oct 2010

Stochastic Population Dynamics Notebook (from Oww) 20 Oct 2010

adaptive-dynamics Abstract 19 Oct 2010

ecology Abstract 19 Oct 2010

Stochastic Population Dynamics Notebook (from Oww) 19 Oct 2010

Teaching 18 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 15 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 14 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 13 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 12 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 11 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 05 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 04 Oct 2010

Comparative Phylogenetics Notebook (from Oww) 03 Oct 2010

Stochastic Population Dynamics Notebook (from Oww) 30 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 30 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 15 Sep 2010

Stochastic Population Dynamics Notebook (from Oww) 14 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 14 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 13 Sep 2010

Stochastic Population Dynamics Notebook (from Oww) 10 Sep 2010

Lab Notebooks 07 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 07 Sep 2010

evolution Research Abstract 04 Sep 2010

Stochastic Population Dynamics Notebook (from Oww) 02 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 01 Sep 2010

Comparative Phylogenetics Notebook (from Oww) 31 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 30 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 30 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 27 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 26 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 25 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 19 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 19 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 18 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 17 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 16 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 15 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 13 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 12 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 12 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 11 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 10 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 10 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 09 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 08 Aug 2010

Stochastic Population Dynamics Notebook (from Oww) 07 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 05 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 04 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 03 Aug 2010

Comparative Phylogenetics Notebook (from Oww) 31 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 30 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 29 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 28 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 27 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 26 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 23 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 22 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 21 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 20 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 19 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 15 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 14 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 13 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 12 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 09 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 08 Jul 2010

Stochastic Population Dynamics Notebook (from Oww) 07 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 07 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 02 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 01 Jul 2010

Comparative Phylogenetics Notebook (from Oww) 30 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 29 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 28 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 27 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 26 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 24 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 23 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 22 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 21 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 16 Jun 2010

Stochastic Population Dynamics Notebook (from Oww) 10 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 09 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 08 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 06 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 05 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 04 Jun 2010

Stochastic Population Dynamics Notebook (from Oww) 03 Jun 2010

Stochastic Population Dynamics Notebook (from Oww) 02 Jun 2010

Stochastic Population Dynamics Notebook (from Oww) 01 Jun 2010

Comparative Phylogenetics Notebook (from Oww) 31 May 2010

Stochastic Population Dynamics Notebook (from Oww) 29 May 2010

Stochastic Population Dynamics Notebook (from Oww) 28 May 2010

Stochastic Population Dynamics Notebook (from Oww) 27 May 2010

Stochastic Population Dynamics Notebook (from Oww) 26 May 2010

Stochastic Population Dynamics Notebook (from Oww) 25 May 2010

Stochastic Population Dynamics Notebook (from Oww) 24 May 2010

Stochastic Population Dynamics Notebook (from Oww) 21 May 2010

Stochastic Population Dynamics Notebook (from Oww) 20 May 2010

Stochastic Population Dynamics Notebook (from Oww) 19 May 2010

Stochastic Population Dynamics Notebook (from Oww) 18 May 2010

Stochastic Population Dynamics Notebook (from Oww) 17 May 2010

Stochastic Population Dynamics Notebook (from Oww) 16 May 2010

Stochastic Population Dynamics Notebook (from Oww) 15 May 2010

Stochastic Population Dynamics Notebook (from Oww) 14 May 2010

Stochastic Population Dynamics Notebook (from Oww) 13 May 2010

Comparative Phylogenetics Notebook (from Oww) 13 May 2010

Stochastic Population Dynamics Notebook (from Oww) 12 May 2010

Comparative Phylogenetics Notebook (from Oww) 12 May 2010

Stochastic Population Dynamics Notebook (from Oww) 11 May 2010

Comparative Phylogenetics Notebook (from Oww) 11 May 2010

Stochastic Population Dynamics Notebook (from Oww) 10 May 2010

Stochastic Population Dynamics Notebook (from Oww) 09 May 2010

Stochastic Population Dynamics Notebook (from Oww) 07 May 2010

Stochastic Population Dynamics Notebook (from Oww) 06 May 2010

Stochastic Population Dynamics Notebook (from Oww) 05 May 2010

Comparative Phylogenetics Notebook (from Oww) 05 May 2010

Stochastic Population Dynamics Notebook (from Oww) 04 May 2010

Comparative Phylogenetics Notebook (from Oww) 04 May 2010

Comparative Phylogenetics Notebook (from Oww) 03 May 2010

Comparative Phylogenetics Notebook (from Oww) 30 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 29 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 28 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 27 Apr 2010

Teaching 26 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 26 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 23 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 22 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 21 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 20 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 20 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 19 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 18 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 16 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 14 Apr 2010

Teaching 13 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 13 Apr 2010

Teaching 12 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 12 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 11 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 09 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 08 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 08 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 07 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 07 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 06 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 06 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 05 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 04 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 03 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 02 Apr 2010

Comparative Phylogenetics Notebook (from Oww) 02 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 01 Apr 2010

Stochastic Population Dynamics Notebook (from Oww) 31 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 31 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 30 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 26 Mar 2010

Stochastic Population Dynamics Notebook (from Oww) 25 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 25 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 24 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 23 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 22 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 20 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 19 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 18 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 17 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 16 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 15 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 14 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 12 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 11 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 10 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 09 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 08 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 07 Mar 2010

Stochastic Population Dynamics Notebook (from Oww) 05 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 05 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 04 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 03 Mar 2010

Comparative Phylogenetics Notebook (from Oww) 02 Mar 2010

Teaching 01 Mar 2010

Stochastic Population Dynamics Notebook (from Oww) 01 Mar 2010

Stochastic Population Dynamics Notebook (from Oww) 28 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 26 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 25 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 25 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 24 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 23 Feb 2010

Teaching 22 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 22 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 22 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 20 Feb 2010

Teaching 19 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 19 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 18 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 17 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 17 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 16 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 15 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 15 Feb 2010

Teaching 11 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 10 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 10 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 09 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 09 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 08 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 08 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 07 Feb 2010

Comparative Phylogenetics Notebook (from Oww) 05 Feb 2010

Teaching 04 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 03 Feb 2010

Stochastic Population Dynamics Notebook (from Oww) 02 Feb 2010

Teaching 25 Jan 2010

CPB thesis proposal 10 Jan 2010