subsetSamples

subsetSamples

R Documentation

Filter results by sample

Description

Create a SQM or SQMlite object containing only samples specified by the user, and the ORFs, contigs, bins, taxa and functions present in those samples.

Usage

subsetSamples(SQM, samples, remove_missing = TRUE, new_sample_names = NULL)

Arguments

`SQM`	SQM or SQMlite object to be subsetted.
`samples`	character. Samples to be included in the subset.
`remove_missing`	bool. If `TRUE`, ORFs, contigs, bins, taxa and functions absent from the selected samples will be removed from the subsetted object (default `TRUE`).
`new_sample_names`	character. New sample names to be included in the subset (default `NULL`).

Value

SQM or SQMlite object containing only the requested samples.

See Also

subsetTax, subsetFun, subsetORFs, combineSQM. The most abundant items of a particular table contained in a SQM object can be selected with mostAbundant.