Summarizing OTU Table Regarding the Composition, Abundance and Beta Diversity of Abundant and Rare Biospheres

Summarizes the taxonomic composition, diversity contribution of the rare and abundant community by using OTU (operational taxonomic unit) table which was generated by analyzing pipeline of 'QIIME' or 'mothur'. The rare biosphere in this package is subset by the relative abundance threshold (for details about rare biosphere please see Lynch and Neufeld (2015) ).

otuSummary

R package of 'otuSummary'

This package contains some functions which summarize the taxonomic composition, diversity at given taxonomic level, the contribution to beta diversity (Bray-Curtis dissimilarity) of the rare and abundant biospheres by using the OTU table which was generated either by qiime or mothur.

How to install this package from github?

if(!require(devtools)){
  install.packages("devtools")
  library(devtools)
} else {library(devtools)
}

install_github("cam315/otuSummary")

Check function list

library("otuSummary")
lsf.str("package:otuSummary")

About citation

citation("otuSummary")

Comments or suggestions

If you have any comments or suggestions, please do not be hesitate to post on my github or drop email to me.