filterfun_sample {phyloseq} | R Documentation

## A sample-wise filter function builder analogous to `filterfun`.

### Description

See the `filterfun`, from the Bioconductor repository, for a taxa-/gene-wise filter (and further examples).

### Usage

    filterfun_sample(...)

### Arguments

`...` | A comma-separated list of functions.

### Value

An enclosure (function) that itself will return a logical vector, according to the functions provided in the argument list, evaluated in order. The output of filterfun_sample is appropriate for the ‘flist’ argument to the genefilter_sample method.

### See Also

`filterfun`, `genefilter_sample`

### Examples

    # Use simulated abundance matrix
    set.seed(711)
    testOTU <- otu_table(matrix(sample(1:50, 25, replace=TRUE), 5, 5), taxa_are_rows=FALSE)
    f1  <- filterfun_sample(topk(2))
    wh1 <- genefilter_sample(testOTU, f1, A=2)
    wh2 <- c(TRUE, TRUE, TRUE, FALSE, FALSE)
    prune_taxa(wh1, testOTU)
    prune_taxa(wh2, testOTU)

[Package phyloseq version 1.28.0 Index]