Re: [R-sig-phylo] How to test if the slope is different from 1 in PGLS?

2014-08-21 Thread Theodore Garland Jr
Just remember that if you have measurement error in the X variable then you 
likely underestimate the true slope:

Ives, A. R., P. E. Midford, and T. Garland. 2007. Within-species variation and 
measurement error in phylogenetic comparative methods. Systematic Biology 
56:252–270.

Also, if you have soft polytomies then you may want to subtract some d.f.:

Purvis, A., and T. Garland, Jr. 1993. Polytomies in comparative analyses of 
continuous characters. Systematic Biology 42:569–575.

Cheers,
Ted

Theodore Garland, Jr., Professor
Department of Biology
University of California, Riverside
Riverside, CA 92521
Office Phone:  (951) 827-3524
Facsimile:  (951) 827-4286 (not confidential)
Email:  tgarl...@ucr.edu
http://www.biology.ucr.edu/people/faculty/Garland.html
http://scholar.google.com/citations?hl=en&user=iSSbrhwJ

Director, UCR Institute for the Development of Educational Applications

Editor in Chief, Physiological and Biochemical Zoology

Fail Lab: Episode One
http://testtube.com/faillab/zoochosis-episode-one-evolution
http://www.youtube.com/watch?v=c0msBWyTzU0


From: r-sig-phylo-boun...@r-project.org [r-sig-phylo-boun...@r-project.org] on 
behalf of Xavier Prudent [prudentxav...@gmail.com]
Sent: Thursday, August 21, 2014 3:06 AM
To: Gustavo Paterno
Cc: r-sig-phylo@r-project.org
Subject: Re: [R-sig-phylo] How to test if the slope is different from 1 in      
PGLS?

Hi Gustavo,

GLS returns the estimated slope and its uncertainty, you can then compute a
t-value where your null-hypothesis is "slope=1", and from that t-value get
a p-value.

Cheers,
Xavier


2014-08-20 21:30 GMT+02:00 Gustavo Paterno :

> Dear all,
> I am working with flower allometry and want to use PGLS to analyse how the
> male and female biomass of the flower scale with total flower biomass.
> So simple linear regressions, but log-trasformed.
>
> my model is:
> mod.male <- pgls(male~total, data=flower.data,lambda="ML")
>
> Besides calculating the slope of the regression I am also interested to
> test if the slope is different then 1. How can I do this in PGLS?
> I would be very glad if any one could help me with that.
>
> Kind regards,
> Gustavo Paterno
> -
> Gustavo B. Paterno
> Doutorando em Ecologia
> Departamento de Ecologia
> Universidade Federal do Rio Grande do Norte
> Natal, Brasil
> -
> skype: gustavopaterno
> pater...@cb.ufrn.br
>
>
>
>
>
>
>
>
>
>
>
>
> [[alternative HTML version deleted]]
>
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> R-sig-phylo mailing list - R-sig-phylo@r-project.org
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--


*---Xavier Prudent*


*Computational biology and evolutionary genomics*

*Guest scientist at the Max-Planck-Institut für Physik komplexer Systeme*
*(MPI-PKS)*
*Noethnitzer Str. 38*

*01187 Dresden *

*Max Planck-Institute for Molecular Cell Biology and Genetics*
*(MPI-CBG)*
*Pfotenhauerstraße 108  *
*01307 Dresden*



*Phone: +49 351 210-2621*

*Mail: prudent [ at ] mpi-cbg.de <http://mpi-cbg.de>*
*---*

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Re: [R-sig-phylo] How to test if the slope is different from 1 in PGLS?

2014-08-21 Thread Xavier Prudent
Hi Gustavo,

GLS returns the estimated slope and its uncertainty, you can then compute a
t-value where your null-hypothesis is "slope=1", and from that t-value get
a p-value.

Cheers,
Xavier


2014-08-20 21:30 GMT+02:00 Gustavo Paterno :

> Dear all,
> I am working with flower allometry and want to use PGLS to analyse how the
> male and female biomass of the flower scale with total flower biomass.
> So simple linear regressions, but log-trasformed.
>
> my model is:
> mod.male <- pgls(male~total, data=flower.data,lambda="ML")
>
> Besides calculating the slope of the regression I am also interested to
> test if the slope is different then 1. How can I do this in PGLS?
> I would be very glad if any one could help me with that.
>
> Kind regards,
> Gustavo Paterno
> -
> Gustavo B. Paterno
> Doutorando em Ecologia
> Departamento de Ecologia
> Universidade Federal do Rio Grande do Norte
> Natal, Brasil
> -
> skype: gustavopaterno
> pater...@cb.ufrn.br
>
>
>
>
>
>
>
>
>
>
>
>
> [[alternative HTML version deleted]]
>
> ___
> 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/
>



-- 


*---Xavier Prudent*


*Computational biology and evolutionary genomics*

*Guest scientist at the Max-Planck-Institut für Physik komplexer Systeme*
*(MPI-PKS)*
*Noethnitzer Str. 38*

*01187 Dresden *

*Max Planck-Institute for Molecular Cell Biology and Genetics*
*(MPI-CBG)*
*Pfotenhauerstraße 108  *
*01307 Dresden*



*Phone: +49 351 210-2621*

*Mail: prudent [ at ] mpi-cbg.de *
*---*

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[R-sig-phylo] How to test if the slope is different from 1 in PGLS?

2014-08-20 Thread Gustavo Paterno
Dear all,
I am working with flower allometry and want to use PGLS to analyse how the male 
and female biomass of the flower scale with total flower biomass.
So simple linear regressions, but log-trasformed.

my model is:
mod.male <- pgls(male~total, data=flower.data,lambda="ML")

Besides calculating the slope of the regression I am also interested to test if 
the slope is different then 1. How can I do this in PGLS?
I would be very glad if any one could help me with that.

Kind regards,
Gustavo Paterno
-
Gustavo B. Paterno 
Doutorando em Ecologia
Departamento de Ecologia 
Universidade Federal do Rio Grande do Norte
Natal, Brasil
-
skype: gustavopaterno
pater...@cb.ufrn.br












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