Description Usage Arguments Value See Also Examples
This function constructs a sequence table (analogous to an OTU table) from the provided list of samples.
1 | makeSequenceTable(samples, orderBy = "abundance")
|
samples |
(Required). A |
orderBy |
(Optional). |
Named integer matrix. A row for each sample, and a column for each unique sequence across all the samples. Note that the columns are named by the sequence which can make display a little unwieldy.
1 2 3 4 5 | derep1 <- derepFastq(system.file("extdata", "sam1F.fastq.gz", package="dada2"))
derep2 <- derepFastq(system.file("extdata", "sam2F.fastq.gz", package="dada2"))
dada1 <- dada(derep1, tperr1)
dada2 <- dada(derep2, tperr1)
seqtab <- makeSequenceTable(list(sample1=dada1, sample2=dada2))
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