TranslateIdToTaxLevel: Find the taxonomy for the given taxon id name

In PathoStat: PathoStat Statistical Microbiome Analysis Package

Description

Find the taxonomy for the given taxon id name

Usage

TranslateIdToTaxLevel(pstat, input.id.vec, tax.level)

Arguments

pstat	pathostat object
input.id.vec	names containing id
tax.level	target taxon level

Value

target taxon level names

Examples

data_dir_test <- system.file("data", package = "PathoStat")
pstat_test <- loadPstat(indir=data_dir_test,
infileName="pstat_data_2_L1.rda")
names.new <- TranslateIdToTaxLevel(pstat_test,
c("ti|862962|org|Bacteroides_fragilis_638R",
"ti|697329|org|Ruminococcus_albus_7" ),
"genus")

PathoStat documentation built on Nov. 8, 2020, 5:28 p.m.