API for Bioconductor-mirror/dada2
Accurate, high-resolution sample inference from amplicon sequencing data

Global functions
C_assign_taxonomy Source code
C_assign_taxonomy2 Source code
C_eval_pair Source code
C_isACGT Source code
C_is_bimera Source code
C_matchRef Source code
C_matrixEE Source code
C_nwalign Source code
C_nwvec Source code
C_pair_consensus Source code
C_subpos Source code
C_table_bimera2 Source code
addSpecies Man page Source code
assignSpecies Man page Source code
assignTaxonomy Man page Source code
c,dada-method Man page
c,derep-method Man page
checkConvergence Source code
collapseNoMismatch Man page Source code
combineDereps2 Source code
dada Man page Source code
dada-class Man page
dada2-package Man page
dada_to_seq_table Man page Source code
dada_uniques Source code
derep-class Man page
derepFasta Man page Source code
derepFastq Man page Source code
errBalancedF Man page
errBalancedR Man page
errExtremeF Man page
errExtremeR Man page
errHmpF Man page
errHmpR Man page
evaluate_kmers Man page Source code
fastqFilter Man page Source code
fastqPairedFilter Man page Source code
filterAndTrim Man page Source code
getAbund Source code
getBadBases Source code
getDadaOpt Man page Source code
getErrors Man page Source code
getFasta Man page Source code
getNseq Source code
getSequences Man page Source code
getUniques Man page Source code
inflateErr Man page Source code
is.list.of Source code
is.sequence.table Source code
isBadBaseFP Source code
isBimera Man page Source code
isBimeraDenovo Man page Source code
isBimeraDenovoTable Man page Source code
isMatch Source code
isPhiX Man page Source code
isShift Source code
isShiftDenovo Man page Source code
isShiftedPair Source code
learnErrors Man page Source code
loessErrfun Man page Source code
makeSequenceTable Man page Source code
makeSpeciesFasta_RDP Man page Source code
makeSpeciesFasta_Silva Man page Source code
mapHits Source code
matchGenera Source code
mergePairs Man page Source code
mergePairsByID Man page Source code
mergeSequenceTables Man page Source code
names<-,dada,ANY-method Man page
names<-,derep,ANY-method Man page
nwalign Man page Source code
nwextract Source code
nwhamming Man page
pfasta Source code
plotComplementarySubstitutions Man page Source code
plotErrors Man page Source code
plotQualityProfile Man page Source code
qtables2 Man page Source code
rc Source code
removeBimeraDenovo Man page Source code
sameOrder Source code
setDadaOpt Man page Source code
show,dada-method Man page
show,derep-method Man page
strdiff Source code
tperr1 Man page
uniques-vector Man page
uniquesToFasta Man page Source code
Bioconductor-mirror/dada2 documentation built on June 1, 2017, 7:31 a.m.