export("otuTable<-")
export("sam_data<-")
export("sampleData<-")
export("sample_data<-")
export("speciesAreRows<-")
export("taxTab<-")
export("tre<-")
export(DPCoA)
export(access)
export(distance)
export(estimate_richness)
export(export_env_file)
export(filter_taxa)
export(filterfunSample)
export(filterfun_sample)
export(genefilterSample)
export(getSamples)
export(getSpecies)
export(getTaxa)
export(getVariable)
export(get_taxa_unique)
export(get_variable)
export(getslots.phyloseq)
export(import)
export(import_RDP_cluster)
export(import_RDP_otu)
export(import_biom)
export(import_env_file)
export(import_mothur)
export(import_mothur_dist)
export(import_pyrotagger_tab)
export(import_qiime)
export(import_qiime_otu_tax)
export(import_qiime_sampleData)
export(import_qiime_sample_data)
export(make_network)
export(merge_phyloseq)
export(merge_species)
export(nspecies)
export(ordinate)
export(otuTable)
export(phyloseq)
export(plot_heatmap)
export(plot_network)
export(plot_ordination)
export(plot_richness)
export(plot_richness_estimates)
export(plot_taxa_bar)
export(plot_tree)
export(prune_species)
export(rank.names)
export(rank_names)
export(rarefy_even_depth)
export(read_tree)
export(rm_outlierf)
export(samData)
export(sam_data)
export(sample.names)
export(sample.variables)
export(sampleData)
export(sampleNames)
export(sampleSums)
export(sample_sums)
export(sample_variables)
export(show_mothur_list_cutoffs)
export(species.names)
export(speciesAreRows)
export(speciesSums)
export(speciesarerows)
export(subset_ord_plot)
export(subset_samples)
export(subset_species)
export(subset_taxa)
export(taxTab)
export(tax_glom)
export(taxa_sums)
export(taxaplot)
export(taxglom)
export(taxtab)
export(threshrank)
export(threshrankfun)
export(tipglom)
export(topf)
export(topk)
export(topp)
export(transformSampleCounts)
export(transform_sample_counts)
export(tre)
exportClasses(otu_table)
exportClasses(phylo)
exportClasses(phyloseq)
exportClasses(sample_data)
exportClasses(taxonomyTable)
exportMethods("[")
exportMethods("otu_table<-")
exportMethods("phy_tree<-")
exportMethods("tax_table<-")
exportMethods("taxa_are_rows<-")
exportMethods(UniFrac)
exportMethods(genefilter_sample)
exportMethods(get_sample)
exportMethods(get_taxa)
exportMethods(merge_phyloseq_pair)
exportMethods(merge_samples)
exportMethods(merge_taxa)
exportMethods(mt)
exportMethods(nsamples)
exportMethods(ntaxa)
exportMethods(otu_table)
exportMethods(phy_tree)
exportMethods(plot_phyloseq)
exportMethods(prune_samples)
exportMethods(prune_taxa)
exportMethods(sample_data)
exportMethods(sample_names)
exportMethods(show)
exportMethods(t)
exportMethods(tax_table)
exportMethods(taxa_are_rows)
exportMethods(taxa_names)
exportMethods(tip_glom)
import(ape)
import(foreach)
import(ggplot2)
import(reshape)
import(scales)
import(vegan)
importFrom(RJSONIO,fromJSON)
importFrom(igraph0,V)
importFrom(igraph0,degree)
importFrom(igraph0,delete.vertices)
importFrom(igraph0,get.edgelist)
importFrom(igraph0,graph.adjacency)
importFrom(igraph0,layout.fruchterman.reingold)
importFrom(multtest,mt.maxT)
importFrom(multtest,mt.minP)
importFrom(plyr,aaply)
importFrom(plyr,ddply)
importFrom(plyr,is.discrete)
importFrom(plyr,laply)
importFrom(plyr,ldply)
importFrom(plyr,llply)
importFrom(plyr,rbind.fill)
