makeSequenceTableMulti: makeSequenceTableMulti

In derele/MultiAmplicon: Metabarcoding and microbiome analysis using multiple amplicons

makeSequenceTableMulti

Description

Create a sequence table inside a MultiAmplicon object.

Usage

makeSequenceTableMulti(MA, mc.cores = getOption("mc.cores", 1L), ...)

Arguments

MA	MultiAmplicon-class object with mergers slot filled
mc.cores	number of compute cores to use parallelizing computations over different amplicons. Only available on *nix systems.
...	additional parameters to be passed to the makeSequenceTable function of dada2. All arguments to the function can be given as a vector of the same length as the number of primer pairs in the MultiAmplicon object, allowing to specify different parameters for each amplicon. If a shorter vector is given it will be recycled to match the number of amplicons.

Details

This is a wrapper for the makeSequenceTable function of dada2. It works on an MultiAmplicon-class object with the mergers slot filled. Use dadaMulti and derepMulti on an amplicon sorted (see sortAmplicons) MultiAmplicon-class object to preprocess your multi-marker data to this point.

Value

A MultiAmplicon-class object with the sequenceTable slot filled

Author(s)

Emanuel Heitlinger

derele/MultiAmplicon documentation built on Oct. 14, 2023, 7:43 p.m.