API for derele/MultiAmplicon
Metabarcoding and microbiome analysis using multiple amplicons
| Global functions | |
|---|---|
| .complainWhenAbsent | Source code |
| .concatenatePairedReadFileSets | Source code |
| .concatenateSampleData | Source code |
| .concatenateSequenceTable | Source code |
| .concatenateTaxonTable | Source code |
| .deriveNames | Source code |
| .extractEllipsis | Source code |
| .fillSampleTables | Man page |
| .getSlot | Source code |
| .meltMASlotList | Source code |
| .paramMessage | Source code |
| .replace_inf_range | Source code |
| .simpfy | Source code |
| .sumThingsOrNull | Man page Source code |
| MultiAmplicon | Man page Source code |
| MultiAmplicon-class | Man page |
| PairedReadFileSet | Man page Source code |
| PairedReadFileSet-class | Man page |
| PrimerPairsSet | Man page Source code |
| PrimerPairsSet-class | Man page |
| [,MultiAmplicon,ANY,ANY,ANY-method | Man page |
| [,MultiAmplicon,index,missing,ANY-method | Man page |
| [,MultiAmplicon,missing,index,ANY-method | Man page |
| [,PairedReadFileSet,index,missing,ANY-method | Man page |
| [,PrimerPairsSet,index,missing,ANY-method | Man page |
| addSampleData | Man page |
| apply,MultiAmplicon,numeric,function-method | Man page |
| blastTaxAnnot | Man page |
| calcPropMerged | Man page |
| calcPropMerged,MultiAmplicon-method | Man page |
| carnivoreSeqRuns | Man page |
| concatenateMultiAmplicon | Man page |
| dadaMulti | Man page Source code |
| derepMulti | Man page Source code |
| getCounts | Man page Source code |
| getDadaF | Man page Source code |
| getDadaR | Man page Source code |
| getDerepF | Man page Source code |
| getDerepR | Man page Source code |
| getMergers | Man page Source code |
| getPairedReadFileSet | Man page |
| getPipelineSummary | Man page Source code |
| getPrimerPairsSet | Man page |
| getRawCounts | Man page |
| getSampleData | Man page |
| getSequenceTable | Man page Source code |
| getSequenceTableNoChime | Man page Source code |
| getSequencesFromTable | Man page |
| getSequencesFromTable,MultiAmplicon-method | Man page |
| getStratifiedFilesF | Man page Source code |
| getStratifiedFilesR | Man page Source code |
| getTaxonTable | Man page Source code |
| length,PairedReadFileSet-method | Man page |
| length,PrimerPairsSet-method | Man page |
| makeSequenceTableMulti | Man page Source code |
| mergeMulti | Man page Source code |
| names,PrimerPairsSet-method | Man page |
| plotAmpliconNumbers | Man page |
| plotAmpliconNumbers,MultiAmplicon-method | Man page |
| plotAmpliconNumbers,matrix-method | Man page |
| plotPipelineSummary | Man page |
| plotPipelineSummary,MultiAmplicon-method | Man page |
| plotPipelineSummary,data.frame-method | Man page |
| removeChimeraMulti | Man page Source code |
| show,MultiAmplicon-method | Man page |
| show,PairedReadFileSet-method | Man page |
| show,PrimerPairsSet-method | Man page |
| sortAmplicons | Man page |
| sortAmplicons, | Man page |
| sortAmplicons,MultiAmplicon-method | Man page |
| sortAmplicons-Method | Man page |
| toPhyloseq | Man page Source code |
