megaptera-package	megaptera-package
addNbAcc	megaptera-internal
addTip	addTip
alignGenus	megaptera-internal
calcDistToRef	megaptera-internal
cetacea	cetacea
check.Clades	check.Function
check.Coverage	check.Function
check.Markers	check.Function
check.NameChanges	check.Function
check.Species	check.Function
check.TaxAgainstPhy	megaptera-internal
compare.phylo.backbone	megaptera-internal
conn	megaptera-internal
coverage	megaptera-internal
dbAutoFillTaxonomy	megaptera-internal
dbconnect	megaptera-internal
dbDeleteSpec	megaptera-internal
dbPars	dbPars
dbPars-class	dbPars-class
dbReadDNA	io.dna.db
dbReadDNAbin	megaptera-internal
dbReadReference	megaptera-internal
dbReadTaxonomy	dbReadTaxonomy
dbUpdateLocus	megaptera-internal
dbUpdateTaxonomy	dbUpdateTaxonomy
dbWriteDNA	io.dna.db
dbWriteDNAbin	megaptera-internal
dbWriteString	megaptera-internal
downloadSequences	megaptera-internal
EFetchHigherTaxon	megaptera-internal
EFetchLocus	megaptera-internal
esearch	megaptera-internal
extractLocus	megaptera-internal
filter.alignment	megaptera-internal
fixTaxonomy	megaptera-internal
fleshoutGuidetree	fleshoutGuidetree
force.mp	megaptera-internal
funX	megaptera-internal
getGeneRange	megaptera-internal
getLineage	megaptera-internal
getMaxDist	megaptera-internal
insert.tip.phylo	megaptera-internal
is.alignable	megaptera-internal
loci	megaptera-internal
locus	locus
locus-class	locus-class
MAD	megaptera-internal
mafft.merge	megaptera-internal
markersGenbank	megaptera-internal
maxDist	megaptera-internal
maxDistMPI	megaptera-internal
meanPairwiseIdentity	megaptera-internal
megapteraHeatmap	megaptera-internal
megapteraPars	megapteraPars
megapteraPars-class	megapteraPars-class
megapteraProj	megapteraProj
megapteraProj-class	megapteraProj-class
myDist	megaptera-internal
NCBI.wrap	megaptera-internal
NCBIeaa	NCBIeaa
ncbiLineage	megaptera-internal
ncbiTaxonomy	ncbiTaxonomy
nucleotideOverlap	megaptera-internal
pars	megaptera-internal
prune.phylo.rank	prune.phylo.rank
read.benchmark.db	megaptera-internal
revCompTest	megaptera-internal
select.seqs	megaptera-internal
setLocus	setLocus
slog	megaptera-internal
sortRanks	megaptera-internal
specCons	megaptera-internal
speciesConsensus	megaptera-internal
splitGiTaxon	megaptera-internal
sql.conform	megaptera-internal
sql.wrap	megaptera-internal
sqlTaxonomyHeader	megaptera-internal
stepA	stepA
stepAA	megaptera-internal
stepB	stepB
stepC	stepC
stepD	stepD
stepE	stepE
stepF	stepF
stepG	stepG
stepH	stepH
strip.infraspec	strip.infraspec
strip.spec	strip.infraspec
summary.sproj	megaptera-internal
supermatrix	megaptera-internal
tab	megaptera-internal
tax	megaptera-internal
tax2tree	megaptera-internal
taxon	taxon
taxon-class	taxon-class
term	megaptera-internal
unalignable	megaptera-internal
whereToInsert	megaptera-internal
write.dna.spectable	megaptera-internal
