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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(betadiv)
export(betatest)
export(biomarker)
export(buildTree)
export(difftest)
export(distcolor)
export(do_aov)
export(do_ttest)
export(do_wilcox)
export(glmr)
export(ldamarker)
export(lightcolor)
export(normalize)
export(otu_table)
export(phy_tree)
export(plotLDA)
export(plotalpha)
export(plotbar)
export(plotbeta)
export(plotdiff)
export(plotmarker)
export(plotquality)
export(preRef)
export(prefilter)
export(processSeq)
export(psmelt)
export(richness)
export(sample_data)
export(subset_samples)
export(subset_taxa)
export(tax_table)
importFrom(DESeq2,DESeq)
importFrom(DESeq2,DESeqDataSetFromMatrix)
importFrom(DESeq2,counts)
importFrom(DESeq2,estimateDispersions)
importFrom(DESeq2,estimateSizeFactors)
importFrom(DESeq2,results)
importFrom(DESeq2,varianceStabilizingTransformation)
importFrom(S4Vectors,DataFrame)
importFrom(SummarizedExperiment,assay)
importFrom(broom,tidy)
importFrom(dplyr,bind_rows)
importFrom(dplyr,do)
importFrom(dplyr,filter)
importFrom(dplyr,group_by)
importFrom(dplyr,group_by_at)
importFrom(dplyr,left_join)
importFrom(dplyr,mutate)
importFrom(dplyr,one_of)
importFrom(dplyr,pull)
importFrom(dplyr,select)
importFrom(dplyr,summarise)
importFrom(dplyr,summarize)
importFrom(dplyr,ungroup)
importFrom(dplyr,vars)
importFrom(edgeR,calcNormFactors)
importFrom(ggplot2,aes)
importFrom(ggplot2,aes_string)
importFrom(ggplot2,coord_flip)
importFrom(ggplot2,element_blank)
importFrom(ggplot2,element_text)
importFrom(ggplot2,geom_bar)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,scale_color_manual)
importFrom(ggplot2,scale_fill_manual)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,stat_ellipse)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_light)
importFrom(ggplot2,xlab)
importFrom(ggplot2,ylab)
importFrom(ggpubr,facet)
importFrom(ggpubr,ggboxplot)
importFrom(ggpubr,ggdotchart)
importFrom(ggpubr,ggdotplot)
importFrom(ggpubr,ggviolin)
importFrom(ggpubr,stat_pvalue_manual)
importFrom(magrittr,"%>%")
importFrom(phangorn,NJ)
importFrom(phangorn,dist.ml)
importFrom(phangorn,optim.pml)
importFrom(phangorn,phyDat)
importFrom(phangorn,pml)
importFrom(phangorn,pml.control)
importFrom(phyloseq,'tax_table<-')
importFrom(phyloseq,`otu_table<-`)
importFrom(phyloseq,distance)
importFrom(phyloseq,estimate_richness)
importFrom(phyloseq,get_taxa_unique)
importFrom(phyloseq,nsamples)
importFrom(phyloseq,ordinate)
importFrom(phyloseq,otu_table)
importFrom(phyloseq,phyloseq)
importFrom(phyloseq,prune_taxa)
importFrom(phyloseq,psmelt)
importFrom(phyloseq,sample_data)
importFrom(phyloseq,subset_taxa)
importFrom(phyloseq,t)
importFrom(phyloseq,tax_table)
importFrom(phyloseq,taxa_are_rows)
importFrom(phyloseq,taxa_sums)
importFrom(phyloseq,transform_sample_counts)
importFrom(plyr,ddply)
importFrom(randomForest,importance)
importFrom(randomForest,randomForest)
importFrom(rlang,`!!`)
importFrom(rstatix,anova_test)
importFrom(rstatix,t_test)
importFrom(rstatix,wilcox_test)
importFrom(stats,as.formula)
importFrom(stats,binomial)
importFrom(stats,glm)
importFrom(stats,kruskal.test)
importFrom(stats,p.adjust)
importFrom(stats,reorder)
importFrom(stats,update)
importFrom(tidyr,gather)
importFrom(tidyr,spread)
importFrom(utils,download.file)
importFrom(utils,head)
importFrom(utils,read.delim)
importFrom(utils,write.table)
importFrom(vegan,adonis)
importFrom(vegan,diversity)
importFrom(vegan,rarefy)
importFrom(vegan,specnumber)