ImportDada2 {MicrobiotaProcess} | R Documentation

## Import function to load the feature table and taxanomy table of dada2

### Description

the function can import the ouput of dada2, and generated the phyloseq obj contained the argument class.

### Usage

    import_dada2(seqtab, taxatab = NULL, reftree = NULL, sampleda = NULL, ...)

    mp_import_dada2(seqtab, taxatab = NULL, reftree = NULL, sampleda = NULL, ...)

### Arguments

`seqtab` | matrix, feature table, the output of `removeBimeraDenovo`.
`taxatab` | matrix, a taxonomic table, the output of `assignTaxonomy`, or the ouput of `addSpecies`.
`reftree` | phylo, treedata or character, the treedata or phylo class of tree, or the tree file.
`sampleda` | data.frame or character, the data.frame of sample information, or the file of sample information, nrow samples X ncol factors.
`...,` | additional parameters.

### Value

phyloseq class contained the argument class.

### Author(s)

Shuangbin Xu

### Examples

    seqtabfile <- system.file("extdata", "seqtab.nochim.rds",
                              package="MicrobiotaProcess")
    taxafile <- system.file("extdata", "taxa_tab.rds",
                            package="MicrobiotaProcess")
    seqtab <- readRDS(seqtabfile)
    taxa <- readRDS(taxafile)
    sampleda <- system.file("extdata", "mouse.time.dada2.txt",
                            package="MicrobiotaProcess")
    mpse <- mp_import_dada2(seqtab=seqtab, taxatab=taxa,
                       sampleda=sampleda)
    mpse

[Package MicrobiotaProcess version 1.4.4 Index]