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- BEAGLE + BEAST 2 in cluster
- BEAST Features
- BEAST Features
- BEAST v2 ReadMe File
- BEAUti
- BFD*
- Constraints Of Monophyly
- Core Development -- Coding Style
- DensiTree How To’s
- Divergence dating with sampled ancestors (FBD model)
- BEAST Linux Download
- BEAST Linux Download
- BEAST Mac Download
- BEAST Windows Download
- EBSPAnalyser How To’s
- Error Messages
- BEAST Features
- Fix starting tree
- Glossary
- How do I increase the ESS of a parameter?
- Increasing ESSs
- Increasing Memory Usage
- Managing Packages
- Model comparison
- Morphological models
- Parameters
- Path Sampling
- Performance Suggestions
- Phylodynamic models
- Plotting *BEAST tree
- Programs
- Sample a discrete trait
- SNAPP-FAQ
- SNAPP
- Summarizing posterior trees
- Total-evidence with FBD dating
- Tracer
- Tree priors and dating
- TreeAnnotator
- What can BEAST do?
- What is ESS?
- Writing a BEAST 2 Package
- What hardware for BEAST 2
- New tutorials
- What is new in v2.7.6
- How to beat bad mixing
- Reducing log file size
- Workshop Announcement
- Improved fixed tree and tree set support
- Forgot to log something? Do a post hoc analysis!
- What is new in v2.7.5
- Generating XML documentation
- Java directives
- What is new in v2.7.4
- The improvement of BEAUti for "sampled ancestor trees" package (SA)
- Is this the prior you want?
- Workshop Announcement -- Taming the BEAST
- Boosting BEAST on Apple silicon
- BEAST v2.6 vs v2.7 performance benchmarking
- What is new in v2.7.3
- What is new in v2.7.1
- Adding `Help me choose` info to BEAUti
- What is new in v2.7.0
- What will change in v2.7.0 for developers
- Species delimitation from multilocus or SNP data
- BEAST help me choose site
- BEAST code statistics
- Yule skyline tree prior
- BICEPS tree prior
- New Zealand open source award
- What is new in v2.6.7
- StarBeast3 -- Efficient Multispecies Coalescent Inference using Parallelised Gene Tree Operators
- Phylogeography in BEAST 2
- BEAUti template debugging tips
- Should you use the proportion invariable sites model?
- Hypothesis testing/model comparison
- Almost Distributions
- Adaptive Metropolis Coupled MCMC(MC3) revisited
- What is new in v2.6.6
- Operator tuning
- Building packages from source
- Uniform tree priors -- why not use them
- Developing efficient BEAST operators
- Understanding BEAST XML -- common errors explained
- What is new in v2.6.4
- Bactrian proposals
- Constraining trees
- BEAST command line options
- Workshop Announcement -- Taming the BEAST
- Running BEAST on Android
- How to make state transition distribution plots (in 3 easy steps)
- ORC -- optimised relaxed clock
- OBAMA -- amino acid model
- PIQMEE -- dealing with duplicates
- What is new in v2.6.3
- Developer guide
- Should I click the estimate box in BEAUti?
- Are these tree sets the same?
- What is new in v2.6.2
- Adaptive Metropolis Coupled MCMC(MC3) works!
- Workshop Announcement -- Taming the BEAST
- Continuous geography priors
- PhD position in Auckland
- Logging ancestral sequences
- BEAST v2.6 Command line tricks
- What is new in v2.6.1
- More on increasing ESS
- Better Apps for the BEAST App Launcher
- Ascertainment correction/Sampling bias
- What is new in v2.6.0
- What will change in v2.6.0 for developers
- Tree processing, clade comparison, LTT plots, and other Apps
- The "Likelihood incorrectly calculated" message
- Workshop Announcement -- Taming the BEAST eh!
- Epoch substitution models
- What is new in v2.5.2
- Assessing temporal structure in data sets of rapidly-evolving microbes and ancient DNA
- Postdoc and two PhD positions in Auckland!
- Workshop Announcement -- Taming the BEAST Down Under
- Nested sampling for posterior inference
- What is new in v2.5.1
- Nested sampling for model selection
- Model adequacy in phylogenetics -- introducing the TreeModelAdequacy package for BEAST2
- For package developer -- DOI is the key to your citation
- Fatal exception -- Could not find a proper state to initialise
- XML tricks
- What is new in v2.5.0
- Adding calibrations by hand
- What will change in v2.5.0 for developers
- Break-away Phylogeography
- 10+ ways to generate BEAST XML
- What is new in v2.4.8
- SSM v1.0.1 package is released
- What is new in v2.4.7
- What is new in v2.4.6
- Using R to estimate probability distribution parameters using quantiles or HPD intervals
- Two new PhD positions in the Centre for Computational Evolution!
- What is new in v2.4.5
- How to open Tracer and FigTree in macOS Sierra
- What is new in v2.4.4
- Workshop Announcement -- Taming the BEAST in the South Pacific
- Metropolis Coupled MCMC(MC3) works?
- What is new in v2.4.3
- What is new in v2.4.2
- What is new in v2.4.1
- BEAST 1 vs 2 performance benchmarking
- What is new in v2.4.0 and its packages
- What will change in v2.4.0 for developers
- What is new in v2.3.2 and its packages
- What is new in v2.3.1 and its packages
- Common problems with ancestral state reconstruction/discrete phylogeography in BEAST
- How much data do I need for SNAPP?
- Help, BEAST acts weird! (or how to set up rates)
- Better BEAUti templates
- Sampling tip dates
- Species Delimitation with BEAST
- What is new in BEAST v2.3.0 and its packages
- Index of 2014 posts
- Sampled Ancestor Trees in BEAST
- Load Balancing
- The coalescent SIR model in BEAST
- BEAST on OS X trouble shooting
- BEAST Apps for the AppStore
- All about starting trees
- SNAPP handling missing data and path sampling made easier
- Path sampling with a GUI
- Setting up BEAUti with a known rate
- BEASTShell String Tricks
- BEAST package for a tree prior
- Testing with BEASTShell
- Roll your own models with BEASTShell
- Simulation Studies with BEASTShell
- Introducing BEASTShell
- Scripting languages for BEAST
- What is new in BEAST v2.1.3 and its packages
- Zipping up a package for BEAST
- Simulation studies with BEAST 2
- BEAST 2 paper is out!
- Programming BEAST without Java
- Checkpointing Tricks
- What is new in BEAST v2.1.2 and its packages
- On the bleeding edge with BEAST 2 -- using dev build from command line (and running BEAST faster on windows)
- Welcome