49 lines
1.4 KiB
R
49 lines
1.4 KiB
R
% Generated by roxygen2: do not edit by hand
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% Please edit documentation in R/obiclean.R
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\docType{methods}
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\name{extracts.obiclean,metabarcoding.data-method}
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\alias{extracts.obiclean,metabarcoding.data-method}
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\alias{extracts.obiclean-methods,metabarcoding.data}
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\title{Extracts the obiclean results}
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\usage{
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\S4method{extracts.obiclean}{metabarcoding.data}(obj)
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}
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\arguments{
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\item{obj}{the \code{\linkS4class{metabarcoding.data}} to analyze}
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}
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\value{
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the modified \code{\linkS4class{metabarcoding.data}} instance
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}
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\description{
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The method \code{extracts.obiclean} of the class \code{\linkS4class{metabarcoding.data}}
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extracts \code{obiclean} results from the MOTUs descriptions include in the
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\code{\linkS4class{metabarcoding.data}} instance.
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When an \code{obitab} file is imported using the \code{\link{import.metabarcoding.data}}
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if \code{obiclean} results are present in the file they are stored in the
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\code{motu} data.frame. By calling this methods, MOTU descriptors describing
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the \code{obiclean} status are moved to a set of layers.
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}
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\examples{
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# load termite data set from the ROBITools sample data
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data(termes)
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# shows the initial list of layer names
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layer.names(t)
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# extracts the obiclean status
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termes = extracts.obiclean(termes)
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# shows the name of the newly created layers
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layer.names(t)
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}
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\seealso{
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\code{\linkS4class{metabarcoding.data}}, \code{\link{threshold.mask}}, \code{\link{normalize}}
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}
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\author{
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Eric Coissac
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}
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