Hello,
I was recommended this email by another student for R help;
I am currently analyzing differences in fish assemblages due to temperature
extremes. I am looking at data over multiple years.
I chose three sampling sites within a single bay, the sites are used as
replicates for my analysis. The ultimate goal would be to determine if
there is any difference between assemblages in a given year and is it the
significant difference occurring between a warm and cold year.
I am interested in determining if the assemblages have a significant
difference between species in the the years, thus I am looking to use Bray
Curtis dissimilarity and displaying it in NMDS.
I want to use the transformed Bray-Curtis for NMDS rather than Hellinger
transformation but it is not displaying properly as Bray Curtis will only
display the years not the species names in the matrix. I am fairly new to
vegan and multivariate analysis.
Thank you for your time and help,
Data Code:
#Packages
library(vegan)
library(ggvegan)
library(ggplot2)
library(tidyverse)
#4th root transformation for count data
>BBcounts_transformed<-siteBB^(1/4)
#Bray-Curtis analysis
>BBtrans_bray<-vegdist(BBcounts_transformed, method="bray")
Wish to replace with hellinger transformation for this given code:
#NMDS-unconstrained
#Transform using Hellinger