Re: [R-sig-phylo] Pagel 94 Baysian Version 3 states?

[Manabu Sakamoto]

Hi Franz,

You should be able to use the multistate option

Manabu

On 14 June 2016 at 10:21, mailbox Franz  wrote:

> Hi Manabu,
>
> thanks for that!
> I can see the discrete model allows 2 binaries. There is no implementation
> of a 3 binaries model as a pendant to corDISC, I guess?!
>
> Cheers,
> Franz
>
>
> Am 14.06.2016 um 11:17 schrieb Manabu Sakamoto  >:
>
> Hi Franz,
>
> It is implemented in BayesTraits (
> http://www.evolution.rdg.ac.uk/BayesTraits.html).
> I know it's not R, and it's a command line based program, so might take a
> while to get used to, but BayesTraits is really powerful (and it's
> Bayesian!)
>
> thanks,
> Manabu
>
> On 14 June 2016 at 09:58, mailbox Franz  wrote:
>
>> Hi everybody,
>>
>> does anyone know if the bayesian version of Pagels 94 Method of
>> correlated binary traits is implemented in R somewhere?
>> There is the corHMM package which implements a 3-state ML version of it,
>> but I couldn’t find a Baysian version anywhere.
>>
>> So I search for a Bayesian version of a 2 or 3 binary state correlated
>> evolution method (preferably in R).
>>
>> The Paper I refer to is:
>>
>> http://www.ncbi.nlm.nih.gov/pubmed/16685633
>>
>> All the best,
>> Franz
>>
>> ___
>> R-sig-phylo mailing list - R-sig-phylo@r-project.org
>> https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
>> Searchable archive at
>> http://www.mail-archive.com/r-sig-phylo@r-project.org/
>
>
>
>
> --
> Manabu Sakamoto, PhD
> manabu.sakam...@gmail.com
>
>
>


-- 
Manabu Sakamoto, PhD
manabu.sakam...@gmail.com

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Re: [R-sig-phylo] Pagel 94 Baysian Version 3 states?

[mailbox Franz]

Hi Manabu,

thanks for that! 
I can see the discrete model allows 2 binaries. There is no implementation of a 
3 binaries model as a pendant to corDISC, I guess?!

Cheers,
Franz


> Am 14.06.2016 um 11:17 schrieb Manabu Sakamoto :
> 
> Hi Franz,
> 
> It is implemented in BayesTraits 
> (http://www.evolution.rdg.ac.uk/BayesTraits.html 
> ).
> I know it's not R, and it's a command line based program, so might take a 
> while to get used to, but BayesTraits is really powerful (and it's Bayesian!)
> 
> thanks,
> Manabu
> 
> On 14 June 2016 at 09:58, mailbox Franz  > wrote:
> Hi everybody,
> 
> does anyone know if the bayesian version of Pagels 94 Method of correlated 
> binary traits is implemented in R somewhere?
> There is the corHMM package which implements a 3-state ML version of it, but 
> I couldn’t find a Baysian version anywhere.
> 
> So I search for a Bayesian version of a 2 or 3 binary state correlated 
> evolution method (preferably in R).
> 
> The Paper I refer to is:
> 
> http://www.ncbi.nlm.nih.gov/pubmed/16685633 
> 
> 
> All the best,
> Franz
> 
> ___
> R-sig-phylo mailing list - R-sig-phylo@r-project.org 
> 
> https://stat.ethz.ch/mailman/listinfo/r-sig-phylo 
> 
> Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/ 
> 
> 
> 
> -- 
> Manabu Sakamoto, PhD
> manabu.sakam...@gmail.com 

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Re: [R-sig-phylo] Pagel 94 Baysian Version 3 states?

[Manabu Sakamoto]

Hi Franz,

It is implemented in BayesTraits (
http://www.evolution.rdg.ac.uk/BayesTraits.html).
I know it's not R, and it's a command line based program, so might take a
while to get used to, but BayesTraits is really powerful (and it's
Bayesian!)

thanks,
Manabu

On 14 June 2016 at 09:58, mailbox Franz  wrote:

> Hi everybody,
>
> does anyone know if the bayesian version of Pagels 94 Method of correlated
> binary traits is implemented in R somewhere?
> There is the corHMM package which implements a 3-state ML version of it,
> but I couldn’t find a Baysian version anywhere.
>
> So I search for a Bayesian version of a 2 or 3 binary state correlated
> evolution method (preferably in R).
>
> The Paper I refer to is:
>
> http://www.ncbi.nlm.nih.gov/pubmed/16685633
>
> All the best,
> Franz
>
> ___
> R-sig-phylo mailing list - R-sig-phylo@r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
> Searchable archive at
> http://www.mail-archive.com/r-sig-phylo@r-project.org/




-- 
Manabu Sakamoto, PhD
manabu.sakam...@gmail.com

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[R-sig-phylo] Pagel 94 Baysian Version 3 states?

[mailbox Franz]

Hi everybody,

does anyone know if the bayesian version of Pagels 94 Method of correlated 
binary traits is implemented in R somewhere?
There is the corHMM package which implements a 3-state ML version of it, but I 
couldn’t find a Baysian version anywhere.

So I search for a Bayesian version of a 2 or 3 binary state correlated 
evolution method (preferably in R).

The Paper I refer to is:

http://www.ncbi.nlm.nih.gov/pubmed/16685633

All the best,
Franz

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