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NAMESPACE
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# Generated by roxygen2: do not edit by hand
export(.fillSampleTables)
export(MultiAmplicon)
export(PairedReadFileSet)
export(PrimerPairsSet)
export(addSampleData)
export(blastTaxAnnot)
export(calcPropMerged)
export(concatenateMultiAmplicon)
export(dadaMulti)
export(derepMulti)
export(getCounts)
export(getDadaF)
export(getDadaR)
export(getDerepF)
export(getDerepR)
export(getMergers)
export(getPairedReadFileSet)
export(getPipelineSummary)
export(getPrimerPairsSet)
export(getRawCounts)
export(getSampleData)
export(getSequenceTable)
export(getSequenceTableNoChime)
export(getSequencesFromTable)
export(getStratifiedFilesF)
export(getStratifiedFilesR)
export(getTaxonTable)
export(makeSequenceTableMulti)
export(mergeMulti)
export(plotAmpliconNumbers)
export(plotPipelineSummary)
export(removeChimeraMulti)
export(sortAmplicons)
export(toPhyloseq)
exportClasses(MultiAmplicon)
exportMethods(apply)
exportMethods(calcPropMerged)
exportMethods(getSequencesFromTable)
exportMethods(length)
exportMethods(names)
importClassesFrom(Matrix,index)
importClassesFrom(phyloseq,sample_data)
importClassesFrom(phyloseq,taxonomyTable)
importFrom(Biostrings,DNAStringSet)
importFrom(Biostrings,isMatchingStartingAt)
importFrom(ShortRead,FastqStreamer)
importFrom(ShortRead,narrow)
importFrom(ShortRead,readFastq)
importFrom(ShortRead,sread)
importFrom(ShortRead,width)
importFrom(ShortRead,yield)
importFrom(dada2,dada)
importFrom(dada2,derepFastq)
importFrom(dada2,getSequences)
importFrom(dada2,getUniques)
importFrom(dada2,makeSequenceTable)
importFrom(dada2,mergePairs)
importFrom(dada2,removeBimeraDenovo)
importFrom(data.table,as.data.table)
importFrom(ggplot2,aes)
importFrom(ggplot2,element_text)
importFrom(ggplot2,facet_wrap)
importFrom(ggplot2,geom_line)
importFrom(ggplot2,geom_point)
importFrom(ggplot2,ggplot)
importFrom(ggplot2,scale_x_discrete)
importFrom(ggplot2,scale_y_continuous)
importFrom(ggplot2,theme)
importFrom(ggplot2,theme_bw)
importFrom(methods,initialize)
importFrom(methods,new)
importFrom(methods,show)
importFrom(methods,slot)
importFrom(methods,slotNames)
importFrom(parallel,mclapply)
importFrom(pheatmap,pheatmap)
importFrom(phyloseq,otu_table)
importFrom(phyloseq,phyloseq)
importFrom(phyloseq,sample_data)
importFrom(phyloseq,tax_table)
importFrom(plyr,revalue)
importFrom(taxonomizr,getTaxonomy)
importFrom(utils,read.csv)