A sample-wise filter function builder analogous to filterfun.
See the filterfun, from the Bioconductor repository,
for a taxa-/gene-wise filter (and further examples).
filterfun_sample(...)
... |
A comma-separated list of functions. |
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.
# 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)
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