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2:18 AM

Serious issues when loading .nexus file for morphological data

Hi all, I have a nexus file of 35 plant species with 136 discrete morphological characters. These

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Serious issues when loading .nexus file for morphological data

Hi all, I have a nexus file of 35 plant species with 136 discrete morphological characters. These

2:18 AM

Francis Nge, Artem B2

Aug 7

Error 110 parsing the xml input file

Hello Francis, Do you add a starting tree via beauti or directly by xml editing? And what's

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Error 110 parsing the xml input file

Hello Francis, Do you add a starting tree via beauti or directly by xml editing? And what's

Aug 7

Santiago Justo Arevalo

Aug 6

Problem with Mascot-GLM

Dear all, I created an xml. file with the Mascot model and I associated two predictors: one that

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Problem with Mascot-GLM

Dear all, I created an xml. file with the Mascot model and I associated two predictors: one that

Aug 6

Karina Yañez Aroche, Pavel Rinkman3

Aug 6

Error 104 parsing the xml input file

I could provide more explicit answer, if you give a chance to glimpse at your xml. суббота, 6 августа

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Error 104 parsing the xml input file

I could provide more explicit answer, if you give a chance to glimpse at your xml. суббота, 6 августа

Aug 6

Artem B, … Nahog Aa9

Aug 5

Bayesian Skygrid settings :(

Many thanks! I set it as 30 and it worked! Best, Han Artem B <ui.artem.ui@gmail.com> 于2022年8月4日

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Bayesian Skygrid settings :(

Many thanks! I set it as 30 and it worked! Best, Han Artem B <ui.artem.ui@gmail.com> 于2022年8月4日

Aug 5

Jess, Pavel Rinkman2

Aug 5

SpreaD3 ancient samples and off centred map

Hello! I have a lot of doubts about existence of convenient way to process ancient dates. But I got

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SpreaD3 ancient samples and off centred map

Hello! I have a lot of doubts about existence of convenient way to process ancient dates. But I got

Aug 5

Pavel Rinkman, Artem B3

Aug 5

What is the difference between ploidy types "mitochondrial" & "Y" in BEAST 1 EBSP?

Hello, Artem! I already noticed this in xml. This is strange that there is no option for viral or

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What is the difference between ploidy types "mitochondrial" & "Y" in BEAST 1 EBSP?

Hello, Artem! I already noticed this in xml. This is strange that there is no option for viral or

Aug 5

Nahog Aa, … Artem B4

Aug 3

Bayesian skygrid plot caution

cut-off should be higher than root height* четверг, 4 августа 2022 г. в 02:47:34 UTC+8, gaode...@

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Bayesian skygrid plot caution

cut-off should be higher than root height* четверг, 4 августа 2022 г. в 02:47:34 UTC+8, gaode...@

Aug 3

Aug 3

Piecewise-linear skyline in BEAST2?

Hi there! Is it possible to use somehow a Piecewise-linear skyline model in BEAST2 as it is

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Piecewise-linear skyline in BEAST2?

Hi there! Is it possible to use somehow a Piecewise-linear skyline model in BEAST2 as it is

Aug 3

Ivan Ayuso-Fernandez

Aug 3

Setting initial fossil age BEAST2

Hi all, I'm following the tutorial from taming the BEAST "Divergence Time Estimation using

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Setting initial fossil age BEAST2

Hi all, I'm following the tutorial from taming the BEAST "Divergence Time Estimation using

Aug 3

bioz...@gmail.com

Aug 2

Can the clock rate for each branch under random local clock model be estimated parallel using beagle

Dear all I used BEAST 2 to estimate the local clock rate, can the clock rate for each branch under

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Can the clock rate for each branch under random local clock model be estimated parallel using beagle

Dear all I used BEAST 2 to estimate the local clock rate, can the clock rate for each branch under

Aug 2

lowee...@gmail.com, Pavel Rinkman4

Aug 2

How do I get the actual 'age' of a node to appear in my results?

It is strange because BEAUTi of BEAST 1 has to add appropriate age idref s into xml. Could you

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How do I get the actual 'age' of a node to appear in my results?

It is strange because BEAUTi of BEAST 1 has to add appropriate age idref s into xml. Could you

Aug 2

Fran3, Jordan Douglas3

Aug 1

Low prior and posterior ESS values

Thank you very much, I will give it a try! Il giorno lunedì 1 agosto 2022 alle 06:16:40 UTC+2 jdo...@

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Low prior and posterior ESS values

Thank you very much, I will give it a try! Il giorno lunedì 1 agosto 2022 alle 06:16:40 UTC+2 jdo...@

Aug 1

Aug 1

A dependent variable of glm

Hello. As far as I know, the dependent variable of phylogeographic glm is migration rates - which is

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A dependent variable of glm

Hello. As far as I know, the dependent variable of phylogeographic glm is migration rates - which is

Aug 1

Dylan Ohearn, Jordan Douglas2

Aug 1

Problems with single individual in Starbeast outgroups?

Hi Dylan, Everything seems reasonable the way you have described it. You do not need more than 1

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Problems with single individual in Starbeast outgroups?

Hi Dylan, Everything seems reasonable the way you have described it. You do not need more than 1

Aug 1

Fran3, Carlo Pacioni3

Jul 29

Dear carlo pacioni, Thank you, I was putting my dates in the wrong format, so this could have been

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Dear carlo pacioni, Thank you, I was putting my dates in the wrong format, so this could have been

Jul 29

Pavel Rinkman, Kylie3

Jul 29

Incomplete partitions

Thank you for your attention & answer! The problem is the fact that I know how to specify

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Incomplete partitions

Thank you for your attention & answer! The problem is the fact that I know how to specify

Jul 29

Ufuoma Babatunde, JT McCrone3

Jul 28

Thorney BEAST with markovJumpsTreeLikelihood

Thank you again, JT. You've been a great help. Indeed, it was a typo, a simple difference in the

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Thorney BEAST with markovJumpsTreeLikelihood

Thank you again, JT. You've been a great help. Indeed, it was a typo, a simple difference in the

Jul 28

nate...@gmail.com

Jul 27

Is it ok to use EBPS / coalescence analysis even if panmixia is violated?

Hi Beast users, I have some questions regarding EBSP analysis and panmixia. I hope someone can help

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Is it ok to use EBPS / coalescence analysis even if panmixia is violated?

Hi Beast users, I have some questions regarding EBSP analysis and panmixia. I hope someone can help

Jul 27

Vano, … nate...@gmail.com3

Jul 27

substitution rate/ clock.rate...

Hi Vano! Did you figure it out? I found this blog, but I could not find a reference to confirm if

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substitution rate/ clock.rate...

Hi Vano! Did you figure it out? I found this blog, but I could not find a reference to confirm if

Jul 27

Jul 27

Nodes & lines are not visible in D3 rendering

Hello, everyone! I have encountered unexpected problems with visualisation of my analysis results.

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Nodes & lines are not visible in D3 rendering

Hello, everyone! I have encountered unexpected problems with visualisation of my analysis results.

Jul 27

Guillaume L, Jordan Douglas2

Jul 26

How does Tracer computes the ESS and why does it differ from tracecomp

Hi Guillaume, The code for calculating the ESS in beast and tracer can be found here https://github.

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How does Tracer computes the ESS and why does it differ from tracecomp

Hi Guillaume, The code for calculating the ESS in beast and tracer can be found here https://github.

Jul 26

Guan, … nate...@gmail.com5

Jul 26

Identical sequences in a dataset: to remove or to keep?

Alexei! Reading in 2022! Thank you so much for this wonderful explanation! All the best Em sexta-

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Identical sequences in a dataset: to remove or to keep?

Alexei! Reading in 2022! Thank you so much for this wonderful explanation! All the best Em sexta-

Jul 26

Prahalad S be18b036

Jul 25

Fixing a starting tree on SNAPP

Hey everyone, I am working on estimating divergence times between different populations of the same

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Fixing a starting tree on SNAPP

Hey everyone, I am working on estimating divergence times between different populations of the same

Jul 25

Nabisubi Patricia

Jul 25

Hello all. I am trying to do phylogeography analysis and i keep getting this warning and my analysis

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Hello all. I am trying to do phylogeography analysis and i keep getting this warning and my analysis

Jul 25

Else, Jordan Douglas3

Jul 25

StarBeast3 posterior ESS

Thank you for the advice! I switched from 4 gamma categories to 1 gamma category with estimating

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StarBeast3 posterior ESS

Thank you for the advice! I switched from 4 gamma categories to 1 gamma category with estimating

Jul 25

Jul 25

Cannot to resume from a saved state

The problem was resolved by specifying the seed from previous analysis. Honestly, this is very

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Cannot to resume from a saved state

The problem was resolved by specifying the seed from previous analysis. Honestly, this is very

Jul 25

Jul 25

BEAST consistently yielding different results in single- versus multi-threaded mode

Is there a reason why BEAST should consistently arrive at different TMRCA when running the same

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BEAST consistently yielding different results in single- versus multi-threaded mode

Is there a reason why BEAST should consistently arrive at different TMRCA when running the same

Jul 25

Nabisubi Patricia

Jul 22

Likelihood component, null,

WARNING: Likelihood component, null, created but not used in the MCMC /opt/ohpc/admin/spack/0.17.0/

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Likelihood component, null,

WARNING: Likelihood component, null, created but not used in the MCMC /opt/ohpc/admin/spack/0.17.0/

Jul 22

Dmitry Biba, Ufuoma Babatunde6

Jul 22

The initial model is invalid because state has a zero probability.

Hello, Dmitry. Thank you for this. I am now able to run it but got confused for a bit what you meant

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The initial model is invalid because state has a zero probability.

Hello, Dmitry. Thank you for this. I am now able to run it but got confused for a bit what you meant

Jul 22

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