NAMESPACE

# Generated by roxygen2: do not edit by hand

export(BAM2firstbaseBAM)
export(align2refGenome)
export(analyzeLeaderlessRNA)
export(analyzeTSSmicrobes)
export(annotateRNA)
export(annotateTSS)
export(assignOperons)
export(assignTaxonmies)
export(bam2bedTSS)
export(betaBinomial)
export(clusterTSS)
export(createNJtree)
export(dinucleotideTSS)
export(fisherExactTest)
export(getPromoterSequencies)
export(getRNA5UTRsequencies)
export(getRepresentativeTSS)
export(getShineDalgarnoSequencies)
export(microbiomeTrimAndQuality)
export(plotOperonPreference)
export(plotTSSperCategory)
export(plotTSSpreference)
export(smallRNAanalysis)
export(trimAlignAndQuality)
import(QuasR)
import(Rcpp)
import(dada2)
import(dplyr)
import(ggplot2)
import(parallel)
import(phangorn)
import(phyloseq)
import(scales)
import(stringr)
import(tidyr)
import(tidyverse)
importFrom(Biostrings,DNAString)
importFrom(Biostrings,DNAStringSet)
importFrom(Biostrings,reverseComplement)
importFrom(DECIPHER,AlignSeqs)
importFrom(Rsamtools,BamFile)
importFrom(Rsamtools,indexBam)
importFrom(VGAM,pbetabinom.ab)
importFrom(bedr,bedr)
importFrom(ggseqlogo,geom_logo)
importFrom(ggseqlogo,theme_logo)
importFrom(gridExtra,grid.arrange)
importFrom(kableExtra,column_spec)
importFrom(kableExtra,kable)
importFrom(kableExtra,kable_classic)
importFrom(kableExtra,spec_color)
importFrom(metan,venn_plot)
importFrom(plyr,ddply)
importFrom(readr,read_delim)
importFrom(rlang,.data)
importFrom(stats,na.omit)
importFrom(stats,pchisq)
importFrom(stats,update)
importFrom(utils,read.table)