Wow- Thank you so much for this!!- I do however have a little confusion on
this part- which is well ,most of it (-:
"If you want to include all weeks and examine the between-subjects effects,
then you need to use betadisper() to get the centroid across all 11 weeks
for each microcosm. "
I do ind
Paul,
As I think you've figured out, you can't use nested permanova when you have
blocks. It is not clear to me why you would have mesocosm included as an
effect in the model. My understanding is that you have a randomized block
design with no "repetitions" of treatment by block combinations. Henc
Hi Stephen and all Permanoverts!
Thank you for posting your thoughts about repeated measure Permanova. I am
following your methods (From Feb 25 2013- posted below) where you use
adonis for the time and time by treatment interaction and , in a seperate
step, the BiodiversityR for the main effect. W
Dear Roman, Sara and Phil,
Thanks so much for your help!! After some playing around with your different
options, I got the graph I was looking for (attached).
I wasn't using the right words to look for help.
Thanks a lot!!
Barbara
- Original Message -
From: "Roman Luštrik"
To: "B
After clicking send I remembered that you might want to scale circle sizes
according to their area, not radius (which is the default to draw). Then I
went to see the link Sarah posted and it deals with this, too (great minds
think alike? :) ).
Cheers,
Roman
On Tue, Mar 17, 2015 at 4:39 PM, Roman
Hi Barbara,
You don't provide a reproducible example or even tell us what
package/function you used to create your NMDS ordination, but you can
extract the coordinates, and use them plus your cover values to create
a bubble plot in several different ways, including symbols(), the pch
argument to b
Assuming you're working with metaMDS from vegan, it's trivial to extract
NMDS scores, add some variable and plot the data. The following code would
be easy to translate into a generic function.
library(vegan)
data(dune)
sol <- metaMDS(dune)
# add some variable that will correspond to size of poi
Hello list,
I am analyzing species composition of weeds in 12 cover crop treatments and a
fallow plot. I have been using nmds and got good results and no problems with
it (although after some fighting!). My data is a matrix of biomass values
sorted by species. Now I'd like to know which of my s
