RAM (version 1.2.0)

data.subset: Subset OTU And Metadata

Description

This function subset OTUs and metadata based on user defined values of metadata variables.

Usage

data.subset(data, meta, factors="", values="", and=TRUE)

Arguments

data

a list of otu tables to be processed. See also RAM.input.formatting.

meta

the metadata for subset.

factors

a vector containing metadata variables.

values

a vector containing values of interest in metadata variables.

and

logical. Determine whether all conditions needs to be met or not.

Value

• The value returned by this function is a list containing otu tables matching the filtering requirement. The last item in the output list is the associated new metadata table fit the requirement.

Examples

data(ITS1, ITS2, meta)
names(meta)
factors <- c("City", "Harvestmethod")
values <- c("City1", "Method1")

# match all requirements, and=TRUE
sub <- data.subset(data=list(ITS1=ITS1, ITS2=ITS2), meta=meta, 
                   factors=factors, values=values, and=TRUE)

# match either of the requirements, and=FALSE
sub <- data.subset(data=list(ITS1=ITS1, ITS2=ITS2), meta=meta, 
                   factors=factors, values=values, and=FALSE)
names(sub)
ITS1.sub <- sub[["ITS1"]]
ITS2.sub <- sub[["ITS2"]]
meta.sub <- sub[["meta"]]