NAMESPACE

# Generated by roxygen2: do not edit by hand

S3method("$",acdatabase.entry)
S3method("[",acdatabase.entry)
S3method(as.list,acdatabase.ag)
S3method(print,acdatabase.entry)
export("%$%")
export("%$%<-")
export(aa.colors)
export(aa.values)
export(aa_characteristics)
export(aacolors_al)
export(ac.inGroups)
export(accessory_residues)
export(acdb.applyFunction)
export(acdb.as.list)
export(acdb.extract)
export(acdb.find)
export(acdb.getIDs)
export(acdb.idToAttr)
export(acdb.inGroups)
export(acdb.long)
export(acdb.matchNames)
export(acdb.matchNamesIndices)
export(acdb.matchSubstitutions)
export(acdb.matchSubstitutionsIndices)
export(acdb.nameIDs)
export(acdb.search)
export(acdb.slice)
export(acids.applyFunction)
export(ag.attribute)
export(ag.children)
export(ag.clade)
export(ag.clade.self)
export(ag.cluster)
export(ag.descendents)
export(ag.descendentsTree)
export(ag.duplicate)
export(ag.experiments)
export(ag.inResults)
export(ag.inheritance)
export(ag.inheritance.variants)
export(ag.inheritedPassageHistory)
export(ag.long)
export(ag.parent)
export(ag.passageChildren)
export(ag.passageChildrenFlat)
export(ag.passageChildrenTree)
export(ag.passageIncludesEgg)
export(ag.passageInheritance)
export(ag.passageParent)
export(ag.passageSiblings)
export(ag.root)
export(ag.sequence.allVariants)
export(ag.sequence.auto)
export(ag.sequence.pluckFromID)
export(ag.short)
export(ag.standardlong)
export(ag.substitutions)
export(agdb.ag)
export(agdb.alterations)
export(agdb.append)
export(agdb.checkAG)
export(agdb.checkagdb)
export(agdb.checkalterations)
export(agdb.checkgenes)
export(agdb.checkid)
export(agdb.checkisolation)
export(agdb.checkpassage)
export(agdb.clusters)
export(agdb.experiments)
export(agdb.genes)
export(agdb.getIDs)
export(agdb.getOrder)
export(agdb.getRank)
export(agdb.hasSubstitutions)
export(agdb.homologousSera)
export(agdb.id)
export(agdb.isolation)
export(agdb.merge)
export(agdb.new)
export(agdb.passage)
export(agdb.root)
export(agdb.sequencesFromMap)
export(agdb.short)
export(agdb.substitutions)
export(agdb.year)
export(agid.cluster)
export(b7_positions)
export(check_condition)
export(clusters.colour)
export(clusters.number)
export(clusters.subsMatrix)
export(clusters.toFactor)
export(collate)
export(coloraa)
export(combineTiters)
export(consensus)
export(expdb.ags)
export(expdb.exp)
export(expdb.expName)
export(expdb.id)
export(expdb.merge)
export(expdb.new)
export(expdb.result)
export(expdb.sr)
export(expdb.toLongTibble)
export(exper.merge)
export(exper.result.append)
export(exper.toLongTibble)
export(extras.getYscale)
export(extras.getYscaleFromTiters)
export(extras.t_col)
export(geneseq.diff)
export(get_protein_sequence)
export(h3_2004_variable_positions)
export(h3_clade_colors)
export(h3_clade_grouping_heirarchy)
export(h3_clade_order)
export(h3_cluster_colors)
export(h3_cluster_subs)
export(h3_clusters)
export(h3_sites)
export(is.substitution)
export(logtiter.toPlot)
export(longtiters.addComparisonTiter)
export(longtiters.addRecords)
export(longtiters.colbase)
export(longtiters.commonColumns)
export(longtiters.getAbsentMuts)
export(longtiters.labelRepeats)
export(longtiters.merge)
export(longtiters.order)
export(longtiters.plotdata)
export(longtiters.splitSubstitutions)
export(longtiters.subsTrafficLight)
export(mergeTiters)
export(merge_on_passage)
export(nucs_to_protein)
export(place_abvs)
export(print_and_capture)
export(read.agdb)
export(read.expdb)
export(read.expdbs)
export(read.srdb)
export(result.titerTable)
export(seq_consensus)
export(sequences_plot)
export(simpleTable)
export(squaretiters.addNames)
export(squaretiters.toLong)
export(sr.attribute)
export(sr.children)
export(sr.cluster)
export(sr.experiments)
export(sr.inResults)
export(sr.inheritance)
export(sr.parent)
export(srdb.append)
export(srdb.clusters)
export(srdb.getIDs)
export(srdb.getOrder)
export(srdb.getRank)
export(srdb.homologousAntigens)
export(srdb.id)
export(srdb.matchAnimalIDs)
export(srdb.matchAnimalIDsIndices)
export(srdb.merge)
export(srdb.new)
export(srdb.sr)
export(srid.cluster)
export(standardizeStrainNames)
export(subs.split)
export(subs.split.list)
export(summarise_plotdata_by_ag_cluster)
export(summarise_plotdata_by_sr_cluster)
export(tibble.factorize)
export(titer.toLog)
export(titer.toPrint)
export(titerplot.colourFacetLabels)
export(titerplot.facet)
export(titerplot.shadeClades)
export(titerplot.styleaxes)
export(titers.changeThreshold)
export(titers.checkThresholds)
export(titers.getThresholds)
export(titers.toNumeric)
export(titerscatter.faceted)
export(toTable)
export(trim_protein_sequence)
export(unlist_safe)
export(write.agdb)
export(write.expdb)
export(write.srdb)