Displaying 8 results from an estimated 8 matches for "amova".
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mova
2012 Feb 11
1
AMOVA error: 'bin' must be numeric or a factor
Hi!
I am trying to analyse my data using amova
(http://www.oga-lab.net/RGM2/func.php?rd_id=pegas:amova):
My input to R is a DNA sequence file, format=fasta
dna<- read.dna("XX.fasta", format="fasta") #left other options as
default
d<- dist.dna(dna, model="raw")
g<- read.table("XXX.design&qu...
2008 May 22
1
AMOVA results from ade4 different than in the reference publication
Hello,
I am trying to run some AMOVA analyses with the amova function in the
package ade4.
When running the example dataset provided in ade4, I noticed a
difference between the published results from the same data (Excoffier
et al. 1992) and what ade4 calculates.
Below are the data for "within sample/population" from ad...
2008 Oct 14
1
question about amova (ade4)
Was there ever an answer to this question about how to do amova with factorial data?
t hundley
[[alternative HTML version deleted]]
2006 Nov 14
0
question about amova (ade4)
Hello,
I am interested in using the amova function of ade4 package of R. I
would like to know if there is any possibility to perform an amova with
a specific anova model, as a factorial anova with some factors nested,
or, if this could not be done, how could I perform an anova with my
specific model but with molecular distance data?
I wou...
2011 Jan 12
0
adonis, amova and haplotype frequency
Dear All,
I'd like to perform adonis (from the vegan package) rather than amova
(in ade4) on some haplotype data, as I have crossed factors. Is there a
simple way to tweak the source to allow weights (haplotype frequencies)
in a similar way to amova?
Best
Simon
2010 Nov 24
0
AMOVA in R
Hi,
I'd like to conduct an amova in R from diploid genotpyic data. The packages
pegas and ade4 require a Euclidian distance matrix.
Is there a simple method to generate a dist object from genotypic data at
the individual level? I think the dist.genet of ade4 only generates
distances at the population level.
Thanks for any help,...
2004 Apr 22
0
ade4 package update
...on CRAN.
New features include:
- functions based on Rao's axiomatization of diversity measures : Rao's
diversity coefficient and dissimilarity coefficient (divc and disc)
- functions based on Excoffier et al. analysis of molecular variance
with tests of the difference among the factors (amova).
- functions introducing double principal coordinate analysis (dpcoa).
- genet class and related functions to analyse genetic data (tables with
populations in rows and alleles/loci in columns).
- kdist class and related functions to analyse series of distance matrices
measured on the same indiv...
2004 Apr 22
0
ade4 package update
...on CRAN.
New features include:
- functions based on Rao's axiomatization of diversity measures : Rao's
diversity coefficient and dissimilarity coefficient (divc and disc)
- functions based on Excoffier et al. analysis of molecular variance
with tests of the difference among the factors (amova).
- functions introducing double principal coordinate analysis (dpcoa).
- genet class and related functions to analyse genetic data (tables with
populations in rows and alleles/loci in columns).
- kdist class and related functions to analyse series of distance matrices
measured on the same indiv...