Hi,
currently I am using the following code to extract "phyla" part of a long label in a new column of dataset ITS_counts.
ITS_counts3 <- ITS_counts |> mutate(Phyla = str_extract(taxonomy, "(?<=;p__).+;c"))
this allows me to isolate the part of the taxonomy column that I want, but leaves the ;c on the end, which I want to get rid of. How would I do this? Thanks.
The regular expression [^;]+ means "one or more characters that are not a semicolon".
library(stringr)
taxonomy <- "sdfljfsldj;p__ThePhylum;c__lskdflsdjf"
str_extract(taxonomy, "(?<=;p__)[^;]+")
#> [1] "ThePhylum"
Created on 2023-04-08 with reprex v2.0.2
that has worked thank you!!!
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