match_fuzzy: Fuzzy matcher

In sckott/splister: Match Species Lists Against Reference List

Description

Fuzzy matcher

Usage

match_fuzzy(x, ref = NULL, against = NULL, ...)

## S3 method for class 'character'
match_fuzzy(x, ref = NULL, against = NULL, ...)

## S3 method for class 'splist'
match_fuzzy(x, ref = NULL, against = NULL, ...)

Arguments

x	Input species list, a character vector
ref	Reference taxon data.frame, or file path
against	(character) What column to match against in data.frame. Ignored if a vector given
...	Further args passed on to grep

Examples

## Not run: 
x <- c("Salmo eperlanus Linnaeus, 1758", 'Oncorhynchus clarkii', 'Salmo',
'Oncorhynchus clarkii', 'Salvelinus fontinalis', 'Salvelinus confluentus')
y <- system.file("examples", "worms_salmo.csv", package = "splister")
dat <- unique(read.csv(y, stringsAsFactors = FALSE))

# get exact matches
res <- match_exact(x, ref = dat, against = "scientificName")

# then move on to do fuzzy matching
match_fuzzy(res)

# pipe, if you like
match_exact(x, ref = dat, against = "scientificName") %>% match_fuzzy

# read from file
x <- system.file("examples", "iucn_dat.csv", package = "splister")
x <- read.csv(x, stringsAsFactors = FALSE)[,-1]
y <- system.file("examples", "worms_sample.csv", package = "splister")
spp <- x$sciname[1:5000L]
(res <- match_exact(spp, ref = y, against = "scientificName"))
res2 <- match_fuzzy(res)

## End(Not run)

sckott/splister documentation built on Sept. 23, 2020, 4:09 a.m.