findTaxonMat {PathoStat}R Documentation

Find the Taxonomy Information Matrix

Description

Find the Taxonomy Information Matrix

Usage

findTaxonMat(names, taxonLevels)

Arguments

names

Row names of the taxonomy matrix

taxonLevels

Taxon Levels of all tids

Value

taxmat Taxonomy Information Matrix

Examples

example_data_dir <- system.file("example/data", package = "PathoStat")
pathoreport_file_suffix <- "-sam-report.tsv"
datlist <- readPathoscopeData(example_data_dir, pathoreport_file_suffix,
input.files.name.vec = as.character(1:6))
dat <- datlist$data
ids <- rownames(dat)
tids <- unlist(lapply(ids, FUN = grepTid))
# taxonLevels <- findTaxonomy(tids[1:5])
# taxmat <- findTaxonMat(ids[1:5], taxonLevels)

[Package PathoStat version 1.20.0 Index]