revbayes-users - Google Groups

Groups

Contact owners and managers

1–30 of 435

Welcome to revbayes-users, a forum and mailing list to discuss RevBayes-related topics, including: RevBayes installation and use, scripting and programming, phylogenetics, population genetics, models of evolution, graphical models, etc.

If you wish to report a bug in RevBayes, use our GitHub Issues page.

This forum has been archived. Please use the GitHub Discussions to interact with other RevBayes users and developers: https://github.com/revbayes/revbayes/discussions.

0 selected

Aug 16

Forum migrated to GitHub Discussions

The RevBayes project now uses GitHub Discussions to facilitate conversations about RevBayes: https://

unread,locked,

Forum migrated to GitHub Discussions

The RevBayes project now uses GitHub Discussions to facilitate conversations about RevBayes: https://

Aug 16

3/29/17

Guidelines to request help with RevBayes

This post is meant for researchers who'd like help using RevBayes, such as help specifying new

unread,locked,

Guidelines to request help with RevBayes

This post is meant for researchers who'd like help using RevBayes, such as help specifying new

3/29/17

Daniela Monti, David Černý2

Aug 14

initializeFromCheckpoint fails for FBD tree with fossil age bounds

Hi Dani, First of all, please note that RevBayes discussions have moved to GitHub: https://github.com

unread,

initializeFromCheckpoint fails for FBD tree with fossil age bounds

Hi Dani, First of all, please note that RevBayes discussions have moved to GitHub: https://github.com

Aug 14

Seraina Klopfstein, Orlando Schwery2

Aug 13

Autotuning and burnin

Hoi Seraina, Those two can be confusing because RevBayes handles them different than other programmes

unread,

Autotuning and burnin

Hoi Seraina, Those two can be confusing because RevBayes handles them different than other programmes

Aug 13

May 29

Phylogenetic Comparative Methods in R course

Dear all, We are happy to announce the upcoming course Phylogenetic Comparative Methods in R, running

unread,

Phylogenetic Comparative Methods in R course

Dear all, We are happy to announce the upcoming course Phylogenetic Comparative Methods in R, running

May 29

Mar 1

Error with missing species BDP probability in EBD incomplete taxa

Hello, I can get EBD incomplete taxon sampling to run for hundreds of thousands of iterations but

unread,

Error with missing species BDP probability in EBD incomplete taxa

Hello, I can get EBD incomplete taxon sampling to run for hundreds of thousands of iterations but

Mar 1

Jan 30

Online course on Bayesian Phylogenetics with RevBayes - 21-24 April

Dear all, I'm pleased to announce a new 4-day online course titled “A Hands-on Course in Bayesian

unread,

Online course on Bayesian Phylogenetics with RevBayes - 21-24 April

Dear all, I'm pleased to announce a new 4-day online course titled “A Hands-on Course in Bayesian

Jan 30

Matthew Van Dam

9/30/25

help with GPU, "useBeagle" option

Hello, I have been trying to get RevBayes to use GPUs on various machines, Linux and Windows with

unread,

help with GPU, "useBeagle" option

Hello, I have been trying to get RevBayes to use GPUs on various machines, Linux and Windows with

9/30/25

Milton Tan, Orlando Schwery2

9/30/25

State Dependent BM Tutorial vs. the script

Hi Milton, I haven't used this myself before, and so I was gonna wax on about my best guesses,

unread,

State Dependent BM Tutorial vs. the script

Hi Milton, I haven't used this myself before, and so I was gonna wax on about my best guesses,

9/30/25

wqt...@gmail.com

9/24/25

Segmentation fault when running ClaSSE and stochastic mapping analyses using RevBayes with TensorPhylo acceleration

Hi all, I am running a ClaSSE and stochastic mapping analysis using RevBayes with TensorPhylo

unread,

Segmentation fault when running ClaSSE and stochastic mapping analyses using RevBayes with TensorPhylo acceleration

Hi all, I am running a ClaSSE and stochastic mapping analysis using RevBayes with TensorPhylo

9/24/25

Sophie Newmarch2

8/17/25

Revbayes terminal not executing script from RevStudio on Windows

Just to update here as well. It turned out that I had a typo when reading in some stratified matrices

unread,

Revbayes terminal not executing script from RevStudio on Windows

Just to update here as well. It turned out that I had a typo when reading in some stratified matrices

8/17/25

Sophie Newmarch2

8/17/25

Time-stratified distance matrices

Hi all, Just an update on this topic in case someone else (likely beginners like me!) would find it

unread,

Time-stratified distance matrices

Hi all, Just an update on this topic in case someone else (likely beginners like me!) would find it

8/17/25

7/2/25

Plugin not registered?

I installed tensorphylo and revbayes following the README instructions and they both said they were

unread,

Plugin not registered?

I installed tensorphylo and revbayes following the README instructions and they both said they were

7/2/25

7/1/25

Issue installing RevBayes for TensorPhylo

Hi all, I am trying to install RevBayes for TensorPhylo following the README instructions. I get all

unread,

Issue installing RevBayes for TensorPhylo

Hi all, I am trying to install RevBayes for TensorPhylo following the README instructions. I get all

7/1/25

6/16/25

RevGadgets - choose node states in ASE tree

Hi all, With the caveat that RevGadgets is its own animal, I wonder if anyone has some tips here. I

unread,

RevGadgets - choose node states in ASE tree

Hi all, With the caveat that RevGadgets is its own animal, I wonder if anyone has some tips here. I

6/16/25

MUHAMMAD REHAN, Benjamin Redelings2

5/30/25

How does RevBayes treat missing character states?

Hi Rehan, 1. Missing character states are treated as a lack of knowledge of the what the state is --

unread,

How does RevBayes treat missing character states?

Hi Rehan, 1. Missing character states are treated as a lack of knowledge of the what the state is --

5/30/25

Daniel Vasquez Restrepo, Ziv Lieberman2

5/26/25

Dating with a fixed tree

Hi Daniel, I may be misunderstanding some combination of your goal and what the tutorial does, but on

unread,

Dating with a fixed tree

Hi Daniel, I may be misunderstanding some combination of your goal and what the tutorial does, but on

5/26/25

Ivan Magalhães

5/21/25

Using "known" substitution rates to calibrate the clock

Hello everyone, I am new to RevBayes I have been able to calibrate a time tree by setting ages to

unread,

Using "known" substitution rates to calibrate the clock

Hello everyone, I am new to RevBayes I have been able to calibrate a time tree by setting ages to

5/21/25

Yang ZHAO, Benjamin Redelings3

5/5/25

cannot be located in the dynamic link library

yeah, it works after redownload, thanks. On Monday, 5 May 2025 at 15:32:41 UTC+2 benjamin....@gmail.

unread,

cannot be located in the dynamic link library

yeah, it works after redownload, thanks. On Monday, 5 May 2025 at 15:32:41 UTC+2 benjamin....@gmail.

5/5/25

3/26/25

Announcement: RevBayes Office Hours April 2 at 7:00 PM Central US Time

Dear RevBayes Community: Several members of the RevBayes Developer Team are hosting virtual office

unread,

Announcement: RevBayes Office Hours April 2 at 7:00 PM Central US Time

Dear RevBayes Community: Several members of the RevBayes Developer Team are hosting virtual office

3/26/25

Hee Han, Benjamin Redelings2

3/8/25

Data file not found Error

Hi Hee Han, Revbayes says that the file is not found. Have you checked that the file is in the right

unread,

Data file not found Error

Hi Hee Han, Revbayes says that the file is not found. Have you checked that the file is in the right

3/8/25

Manel Aitelhadj, Benjamin Redelings3

11/19/24

BM tutorial : could not compute lnProb for node

Can you repost this here? https://github.com/revbayes/revbayes/discussions -BenRI On 11/18/24 6:56 AM

unread,

BM tutorial : could not compute lnProb for node

Can you repost this here? https://github.com/revbayes/revbayes/discussions -BenRI On 11/18/24 6:56 AM

11/19/24

Benjamin Redelings

11/15/24

New discussion forum

Hi everyone, We have opened a new discussion forum for revbayes here: https://github.com/revbayes/

unread,

New discussion forum

Hi everyone, We have opened a new discussion forum for revbayes here: https://github.com/revbayes/

11/15/24

Torsten Hauffe2

11/7/24

Cannot drop tip from proposed phylogeny

I solved the problem of dropping tip from a sampled phylogeny by using the fnPruneTree() function. On

unread,

Cannot drop tip from proposed phylogeny

I solved the problem of dropping tip from a sampled phylogeny by using the fnPruneTree() function. On

11/7/24

Ziv Lieberman, … Benjamin Redelings7

11/6/24

Soft topological constraints

I'm thinking about adding pseudodata for tree constraints, so that instead of making the

unread,

Soft topological constraints

I'm thinking about adding pseudodata for tree constraints, so that instead of making the

11/6/24

10/31/24

Convenience R Package NaN argument error

Hi all, I am new to using the convenience R package, and I need some help loading in my tree file to

unread,

Convenience R Package NaN argument error

Hi all, I am new to using the convenience R package, and I need some help loading in my tree file to

10/31/24

Sophie Seidel, Benjamin Redelings3

10/10/24

Error when loading PoMo data

For anyone having the same issue: The response to my issue on github (https://github.com/revbayes/

unread,

Error when loading PoMo data

For anyone having the same issue: The response to my issue on github (https://github.com/revbayes/

10/10/24

Nathanael Walker-Hale2

9/19/24

Advice on tree prior for constrained analysis of within and between species sampling

wary*! An ironic typo... On Thursday, September 19, 2024 at 1:22:41 PM UTC+1 Nathanael Walker-Hale

unread,

Advice on tree prior for constrained analysis of within and between species sampling

wary*! An ironic typo... On Thursday, September 19, 2024 at 1:22:41 PM UTC+1 Nathanael Walker-Hale

9/19/24

Zachary Griebenow, David Černý2

8/21/24

Backbone topology, non-FBD

Hi Zach, It's not true that dnConstrainedTopology requires FBD as the base distribution; it's

unread,

Backbone topology, non-FBD

Hi Zach, It's not true that dnConstrainedTopology requires FBD as the base distribution; it's

8/21/24

7/16/24

Best transition model for microsatellites?

I would like to model microsatellites. These are genomic elements with 2, 3, or 4 bp repeating motifs

unread,

Best transition model for microsatellites?

I would like to model microsatellites. These are genomic elements with 2, 3, or 4 bp repeating motifs

7/16/24

Caroline Siegert, Benjamin Redelings5

7/15/24

FBD changes with updates?

Oh, and I should say that from what I heard, the earlier version of revbayes probably also has a bug

unread,

FBD changes with updates?

Oh, and I should say that from what I heard, the earlier version of revbayes probably also has a bug

7/15/24

Martin R. Smith

7/8/24

Subtracting log-likelihoods within a model

I'm implementing a model in RevBayes. Tersely, I observe data x under the model M(θ) with

unread,

Subtracting log-likelihoods within a model

I'm implementing a model in RevBayes. Tersely, I observe data x under the model M(θ) with

7/8/24

Search

Clear search

Close search

Google apps

Main menu