De Guzman, Francia, Tongco, Grino, Puno

Bio 160 PM Group 2

Our group used R studio analysis to determine the diversity of AM and PM data on vegetation
analysis. According to figure 1, there is a difference in the diversity between the plots of the two
sessions.

[AM] 1.460986 0.000000 0.000000 1.445186 1.571360 1.316069 1.033562 1.565918

[PM] 1.149917 1.455997 1.006215 1.494735 1.060613 1.477955 1.506954 1.383826
Figure 1. Shannon Index of Plots from Morning and Afternoon session

Figure 2. Cluster of Similarities of Specimen from Both Sites

Figure 2 shows that specimens found in plots 2 and 3 are the most distant from the rest of the
plots but they are also similar to each other. Plots 11 and 13 are the most similar plots.
Appendix A – Rscript
tree = read.csv("plottree.csv",sep=",", header=TRUE)
Tree.dist=vegdist(tree,method="bray")
Tree.dist
Tree.hclust=hclust(Tree.dist)
Tree.hclust
plot(Tree.hclust, col="chocolate", main= "Site similarity")
diversity(Tree,index="shannon")
diversity(Tree,index="shannon")
diversity(tree,index="shannon")
#Shannon Diversity Index:
diversity(tree,index="simpson")
#Simpson Diversity Index
specnumber(tree)
#Based on the diversity indices, we conclude that Plot 5 has the highest species diversity